New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP000730	2494782 =	42 (1.230)	3 (0.100)	3/254	5.3	6.8%	intergenic (+1/+62)	USA300HOU_2358/USA300HOU_2359	hypothetical protein/hypothetical membrane protein
	?	CP000730	2494828 =	43 (1.370)					intergenic (+47/+16)	USA300HOU_2358/USA300HOU_2359	hypothetical protein/hypothetical membrane protein
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

AGTGACAAAAAAGCGAAGATATGACACAACTGAATTTGGTTTAGCACATAGTATGACAGCTAAAATAACTTTACATCAAGCGCTATACAAATAAAATAGCTATACCATGACGCTCGCTACAAACGTCTTGTATAGCTATTATTTCTATTTATTAAATTATGACGGCACTTCAGTACGTTTTGTGCTATGTTTTCTAACAATAGCTGAAACTAAACTTGATACAGCGCCAAAAATCATAAACCCTATAAACATCCACATTGTACTATTTAATTCAATAT  >  CP000730/2494688‑2494965                                                                                                                                             |                                                                                                                                          aGTGACAAAAAAGCGAAGATATGACACAACTGAATTTGGTTTAGCACATAGTATGACAGCTAAAATAACTTTACATCAAGCGCTATACAAATAAAATAGCTATACCATGACGCTCGCTACAAACGTCTTATATAGCtatta                                                                                                                                           >  1:269631/1‑141 (MQ=255)  gTGACAAAAAAGCGAAGATATGACACAACTGAATTTGGTTTAGCACATAGTATGACAGCTAAAATAACTTTACATCAAGCGCTATACAAATAAAATAGCTATACCATGACGCTCGCTACAAACGTCTTGTATAGCtattat                                                                                                                                          <  2:247710/141‑1 (MQ=255)     aCAAAAAAGCGAAGATATGACACAACTGAATTTGGTTTAGCACATAGTATGACAGCTAAAATAACTTTACATCAAGCGCTATACAAATAAAATAGCTATACCATGACGCTCGCTACAAACGTCTTGTATAGCTATTATTTc                                                                                                                                       >  2:149391/1‑141 (MQ=255)     aCAAAAAAGCGAAGATATGACACAACTGAATTTGGTTTAGCACATAGTATGACAGCTAAAATAACTTTACATCAAGCGCTATACAAATAAAATAGCTATACCATGACGCTCGCTACAAACGTCTTGTATAGCTATTATTTc                                                                                                                                       >  2:167233/1‑141 (MQ=255)     aCAAAAAAGCGAAGATATGACACAACTGAATTTGGTTTAGCACATAGTATGACAGCTAAAATAACTTTACATCAAGCGCTATACAAATAAAATAGCTATACCATGACGCTCGCTACAAACGTCTTGTATAGCTATTATTTc                                                                                                                                       >  1:192576/1‑141 (MQ=255)            aGCGAAGATATGACACAACTGAATTTGGTTTAGCACATAGTATGACAGCTAAAATAACTTTACATCAAGCGCTATACAAATAAAATAGCTATACCATGACGCTCGCTACAAACGTCTTGTATAGCTATTATTTCtatttat                                                                                                                                <  1:7734/141‑1 (MQ=255)                aaGATATGACACAACTGAATTTGGTTTAGCACATAGTATGACAGCTAAAATAACTTTACATCAAGCGCTATACAAATAAAATAGCTATACCATGACGCTCGCTACAAACGTCTTGTATAGCTATTATTTCTATTTATTaaa                                                                                                                            <  2:123811/141‑1 (MQ=255)                   atatGACACAACTGAATTTGGTTTAGCACATAGTATGACAGCTAAAATAACTTTACATCAAGCGCTATACAAATAAAATAGCTATACCATGACGCTCGCTACAAACGTCTTGTATAGCTATTATTTCTATTTATTAAATTa                                                                                                                         <  1:81567/141‑1 (MQ=255)                       gACACAACTGAATTTGGTTTAGCACATAGTATGACAGCTAACATAACTTTACATCAAGCGCTATACAAATAAAATAGCTATACCATGACGCTCGCTACAAACGTCTTGTATAGCTATTATTTCTATTTATTAAATTATGAc                                                                                                                     <  1:129763/141‑1 (MQ=255)                        acacAACTGAATTTAGTTTAGCACATAGTATGACAGCTAAAATAACTTTACATCAAGCGCTATACAAATAAAATAGCTATACCATGACGCTCGCTACAAACGTCTTGTATAGCTATTATTTCTATTTATTAAATTATGACg                                                                                                                    >  2:261580/1‑141 (MQ=255)                              cTGAATTTGGTTTAGCACATAGTATGACAGCTAAAATAACTTTACATCAAGCGCTATACAAATAAAATAGCTATACCATGACGCTCGCTACAAACGTCTTGTATAGCTattatt                                                                                                                                         >  2:79442/1‑114 (MQ=255)                              cTGAATTTGGTTTAGCACATAGTATGACAGCTAAAATAACTTTACATCAAGCGCTATACAAATAAAATAGCTATACCATGACGCTCGCTACAAACGTCTTGTATAGCTattatt                                                                                                                                         <  1:79442/114‑1 (MQ=255)                              cTGAATTTGGTTTAGCACATAGTATGACAGCTAAAATAACTTTACATCAAGCGCTATACAAATAAAATAGCTATACCATGACGCTCGCTACAAACGTCTTGTATAGCTATTATTTCTATTTATTAAATTATGACGGCACtt                                                                                                              >  1:124077/1‑141 (MQ=255)                                  aTTTGGTTTAGCACATAGTATGACAGCTAAAATAACTTTACATCAAGCGCTATACAAATAAAATAGCTATACCATGACGCTCGCTACAAACGTCTTGTATAGCTATTAttt                                                                                                                                        <  2:177989/111‑1 (MQ=255)                                  aTTTGGTTTAGCACATAGTATGACAGCTAAAATAACTTTACATCAAGCGCTATACAAATAAAATAGCTATACCATGACGCTCGCTACAAACGTCTTGTATAGCTATTAttt                                                                                                                                        >  1:177989/1‑111 (MQ=255)                                       gTTTAGCACATAGTACGACAGCTAAAATAACTTTCCATCACGCGCTATACAAATACAATAGCTATACCATGACGCTCGCTACACACGTCTTGTCCAGCCATTATTTCCATTTATTAAGTCATCACGGCCCGTCAGTACGtt                                                                                                     >  2:144941/1‑141 (MQ=255)                                        tttAGCACATAGTATGACAGCTAAAATAACTTTACATCAAGCGCTATACAAATAAAATAGCTATACCATGACGCTCGCTACAAACGTCTTGTATAGCTATTATTTCTATTTATTAAATTATGACGGCACTTCAGTACGttt                                                                                                    >  1:62559/1‑141 (MQ=255)                                        tttAGCACATAGTATGACAGCTAAAATAACTTTACATCAAGCGCTATACAAATAAAATAGCTATACCATGACGCTCGCTACAAACGTCTTGTATAGCTATTATTTCTATTTATTAAATTATGACGGCACTTCAGTACGttt                                                                                                    >  1:39504/1‑141 (MQ=255)                                            gCACATAGTATGACAGCTAAAATAACTTTACATCAAGCGCTATACAAATAAAATAGCTATACCATGACGCTCGCTACAAACGTCTTGTATAGCTATTATTTCTATTTATTAAATTATGACGGCACTTCAGTACGTTTtgtg                                                                                                >  1:141294/1‑141 (MQ=255)                                                 tAGTATGACAGCTAAAATAACTTTACTTCAAGCGCTATACAAATAAAATAGCTATACCATGACGCTCGCTACAAACCTCTTGTATAGCTATTATTTCTATTTATTAAATTATAACGGCACTTCAGTACGTTTTGTGCTATg                                                                                           >  2:196994/1‑141 (MQ=255)                                                     aTGACAGCTAAAATAACTTTACATCAAGCGCTATACAAATAAAATAGCTATACCATGACGCTCGCTACAAACGTCTTGTATAGCTATTATTTCTATTTATTAAATTATGACGGCACTTCAGTACGTTTTGTGCTATGtttt                                                                                       >  1:116975/1‑141 (MQ=255)                                                     aTGACAGCTAAAATAACTTTACATCAAGCGCTATACAAATAAAATAGCTATACCATGACGCTCGCTACAAACGTCTTGTATAGCTATTATTTCTATTTATTAAATTATGACGGCACTTCAGTACGTTTTGTGCTATGtttt                                                                                       <  1:277545/141‑1 (MQ=255)                                                       gACAGCTAAAATAACTTTACATCAAGCGCTATACAAATAAAATAGCTATACCATGACGCTCGCTACAAACGTCTTGTATAGCTATTATTTCTATTTATTAAATTATGACGGCACTTCAGTACGTTTTGTGCTATGTTTTCt                                                                                     <  2:363135/141‑1 (MQ=255)                                                        aCAGCTAAAATAACTTTACATCAAGCGCTATACAAATAAAATAGCTATACCATGACGCTCGCTACAAACGTCTTGTATAGCTATTATTTCTATTTATTAAATTATGACGGCACTTCAGTACGTTTTGTGCTATGTTTTCTa                                                                                    >  1:177898/1‑141 (MQ=255)                                                        aCAGCTAAAATAACTTTACATCAAGCGCTATACAAAGAAAATAGCTATACCATGACGCTCGCTACAAACGTCTTGTATAGCTATTATTTCTATTTATTAAATTATGACGGCACTTCAGTACGTTTTGTGCTATGTTTTCTa                                                                                    >  1:177913/1‑141 (MQ=255)                                                                    aCTTTACATCAAGCGCTATACAAATAAAATAGCTATACCATGACGCTCGCTACAAACGTCTTGTATAGCTATTATTTCTATTTATTAAATTATGACGGCACTTCAGTACGTTTTGTGCTATGTTTTCTAACAATAGCTGaa                                                                        <  2:77578/141‑1 (MQ=255)                                                                      tttACATCAAGCGCTATACAAATAAAATAGCTATACCATGACGCTCGCTACAAACGTCTTGTATAGCTATTATTTCTATTTATTAAATTATGACGGCACTTCAGTACGTTTTGTGCTATGTTTTCTAACAATAGCTGaaac                                                                      <  1:26792/141‑1 (MQ=255)                                                                       ttACATCAAGCGCTATACAAATAAAATAGCTATACCATGACGCTCGCTACAAACGTCTTGTATAGCTATTATTTCTATTTATTAAATTATGACGGCACTTCAGTACGTTTTGTGCTATGTTTTCTAACAATAGCTGaaact                                                                     <  1:167233/141‑1 (MQ=255)                                                                                    tataCAAATAAAATAGCTATACCATGACGCTCGCTACAAACGTCTTGTATAGCTATTATTTCTATTTATTAAATTATGACGGCACTTCAGTACGTTTTGTGCTATGTTTTCTAACAATAGCTGAAACTAAACTTGATACAg                                                        <  1:143447/141‑1 (MQ=255)                                                                                              aaataGCTATACCATGACGCTCGCTACAAACGTCTTGTATAGCTATTATTTCTATTTATTAAATTATGACGGCACTTCAGTACGTTTTGTGCTATGTTTTCTAACAATAGCTGAAACTAAACTTGATACAGCGCCAAAAAt                                              <  1:368561/141‑1 (MQ=255)                                                                                                        aCCATGACGCTCGCTACAAACGTCTTGTATAGCTATTATTTCTATTTATTAAATTATGACGGCACTTCAGTACGTTTTGTGCTATGTTTTCTAACAATAGCTGAAACTAAACTTGATACAGCGCCAAAAATCATAAACCCt                                    >  1:229995/1‑141 (MQ=255)                                                                                                         ccATGACGCTCGCTACAAACGTCTTGTATAGCTATTATTTCTATTTATTAAATTATGACGGCACTTCAGTACGTTTTGTGCTATGTTTTCTAACAATAGCTGAAACTAAACTTGATACAGCGCCAAAAATCATAAACCCta                                   >  1:262277/1‑141 (MQ=255)                                                                                                             gACGCTCGCTACAAACGTCTTGTATAGCTATTATTTCTATTTATGAAATTATGACGGCACTTCAGTACGTTTTGTGCTATGTTTTCTAACAATAGCTGAAACTAAACTTGATACAGCGCCAAAAATCATAAACCCTATaaa                               <  1:95284/141‑1 (MQ=255)                                                                                                              aCGCTCGCTACAAACGTCTTGTATAGCTATTATTTCTATTTATTAAATTATGACGGCACTTCAGTACGTTTTGTGCTATGTTTTCTAACAATAGCTGAAACTAAACTTGATACAGCGCCAAAAATCATAAACCCTATAAAc                              >  2:273111/1‑141 (MQ=255)                                                                                                              aCGCTCGCTACAAACGTCTTGTATAGCTATTATTTCTATTTATTAAATTATGACGGCACTTCAGTACGTTTTGTGCTATGTTTTCTAACAATAGCTGAAACTAAACTTGATACAGCGCCAAAAATCATAAACCCTATAAAc                              >  2:250283/1‑141 (MQ=255)                                                                                                                gctcgctACAAACGTCTTGTATAGCTATTATTTCTATTTATTAAATTATGACGGCACTTCAGTACGTTTTGTGCTATGTTTTCTAACAATAGCTGAAACTAAACTTGATACAGCGCCAAAAATCAaaaatcataaacccta                            >  2:250862/1‑129 (MQ=255)                                                                                                                 ctcgctACAAACGTCTTGTATAGCTATTATTTCTATTTATTAAATTATGACGGCACTTCAGTACGTTTTGTGCTATGTTTTCTAACAATAGCTGAAACTAAACTTGAAAAAAAGAAAAAAATCATAAACCCTATAAACATc                           <  2:94996/141‑1 (MQ=255)                                                                                                                   cgctACAAACGTCTTGTATAGCTATTATTTCTATTTATTAAATTATGACGGCACTTCAGTACGTTTTGTGCTATGTTTTc                                                                                      >  1:317077/1‑80 (MQ=255)                                                                                                                   cgctACAAACGTCTTGTATAGCTATTATTTCTATTTATTAAATTATGACGGCACTTCAGTACGTTTTGTGCTATGTTTTc                                                                                      <  2:317077/80‑1 (MQ=255)                                                                                                                   cgctACAAACGTCTTGTATAGCTATTATTTCTATTTATTAAATTATGACGGCACTTCAGTACGTTTTGTGCTATGTTTTCTAACAATAGCTGAAACTAAACTTGATACAGCGCCAAAAATCATAAACCCTATAAACATCca                         >  1:229104/1‑141 (MQ=255)                                                                                                                    gctACAAACGTCTTGTATAGCTATTATTTCTATTTATTAAATTATGACGGCACTTCAGTACGTTTTGTGCTATGTTTTCTAACAATAGCTGAAACTAAACTTGATACAGCGCCAAAAATCATAAACCCTATAAACATCcac                        <  1:84268/141‑1 (MQ=255)                                                                                                                        cAAACGTCTTGTATAGCTATTATTTCTATTTATTAAATTATGACGGCACTTCAGTACGTTTTGTTCTATGTTTTCTAACAATAGCTGAAACTAAACTTGATACAGCGCCAAAAATCATAAACCCTATAAACATCCACATTg                    <  1:261580/141‑1 (MQ=255)                                                                                                                              tCTTGTATAGCTATTATTTCTATTTATTAAATTATGACGGCACTTCAGTACGTTTTGTGCTATGTTTTCTAACAATAGCTGAAACTAAACTTGATACAGCGCCAAAAATCATAAACCCTATAAACATCCACATTGTACTAt              <  1:273111/141‑1 (MQ=255)                                                                                                                                  gTATAGCTATTATTTCTATTTATTAAATTATGACGGCACTTCAGTACGTTTTGTGCTATGTTTTCTAACAATAGCTGAAACTAAACTTGATACAGCGCCAAAAATCATAAACCCTATAAACATCCACATTGTACTATTTaa          <  2:326438/141‑1 (MQ=255)                                                                                                                                          attattTCTATTTATTAAATTATGACGGCACTTCAGTACGTTTTGTGCTATGTTTTCTAACAATAGCTGAAACTAAACTTGATACAGCGCCAAAAATCATAAACCCTATAAACATCCACATTGTACTATTTAATTCAatat  >  1:355624/1‑141 (MQ=255)                                                                                                                                             |                                                                                                                                          AGTGACAAAAAAGCGAAGATATGACACAACTGAATTTGGTTTAGCACATAGTATGACAGCTAAAATAACTTTACATCAAGCGCTATACAAATAAAATAGCTATACCATGACGCTCGCTACAAACGTCTTGTATAGCTATTATTTCTATTTATTAAATTATGACGGCACTTCAGTACGTTTTGTGCTATGTTTTCTAACAATAGCTGAAACTAAACTTGATACAGCGCCAAAAATCATAAACCCTATAAACATCCACATTGTACTATTTAATTCAATAT  >  CP000730/2494688‑2494965

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.