New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP000730	1172325 =	23 (0.680)	3 (0.100)	3/246	4.9	12.9%	intergenic (+52/+393)	USA300HOU_1101/USA300HOU_1103	hypothetical protein/exotoxin
	?	CP000730	1172364 =	20 (0.670)					intergenic (+91/+354)	USA300HOU_1101/USA300HOU_1103	hypothetical protein/exotoxin
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

AACGATTATTAAACTTTATAGTTACTATGTCTCATTAAAAGAACACTAATCATGGGACAATAAAGTATTGCTATAATAATTTAATCATTAAATGAAGGAATAGAGCCTAAGACATAATAAATCAATGTCTTAGGCTCTACAATATTATATTGGTAGTAGTTGACCGAATGAAAATGCCCATGTAACAAGCATTTTTCAATTATAGGCGGGGCCCCAACATAGAGAATTTCAAAAAGAAATTCTACAGACAATGCAAGTTGGGGTGGGCCCCAACACAGAA  >  CP000730/1172225‑1172504                                                                                                                                            |                                                                                                                                             aaCGATTATTAAACTTTATAGTTACTATGTCTCATTAAAAGAACACTAATCATGGGACAATAAAGTATTGCTATAATAATTTAATCATTAAATGAAGGAATAGAGCCTAAGACATAATAAATCAATGTCTTAGGCTCTACa                                                                                                                                             >  2:33576/1‑141 (MQ=255) aaCGATTATTAAACTTTATAGTTACTATGTCTCATTAAAAGAACACTAATCATGGGACAATAAAGTATTGCTATAATAATTTAATCATTAAATGAAGGAATAGAGCCTAAGACATAATAAATCAATGTCTTAGGCTCTACa                                                                                                                                             >  1:283161/1‑141 (MQ=255)                             gTCTCATTAAAAGAACACTTATCATGGGACAATAAAGTATTGCTATAATAATTTAATCATTAAATGAAGGAATAGAGCCTAAGACATAATAAATCAATGTCTTAGGCTCTACAATATTATATTGGTAGTAGTTGACCGAAt                                                                                                                 <  2:389119/141‑1 (MQ=255)                             gTCTCATTAAAAGAACACTAATCATGGGACAATAAAGTATTGCTATAATAATTTAATCATTAAATGAAGGAATAGAGCCTAAGACATAATAAATCAATGTCTTAGGCTCTACAATATTATATTGGTAGTAGTTGACCGAAt                                                                                                                 <  1:372124/141‑1 (MQ=255)                               ctcATTAAAAGAACACTAATCATGGGACAATAAAGTATTGCTATAATAATTTAATCATTAAATGAAGGAATAGAGCCTAAGACATAATAAATCAATGACTTAGGCTCTACAATATTATATTGGTAGTAGTTGACCGAATGa                                                                                                               >  2:366932/1‑141 (MQ=255)                                       aaGAACACTAATCATGGGACAATAAAGTATTGCTATAATAATTTAATCATTAAATGAAGGAATAGAGCCTAAGACATAATAAATCAATGTCTTAGGCTCTACAATATTATATTGGTAGTAGTTGACCGAATGAAAATGccc                                                                                                       <  1:33576/141‑1 (MQ=255)                                       aaGAACACTAATCATGGGACAATAAAGTATTGCTATAATAATTTAATCATTAAATGAAGGAATAGAGCCTAAGACATAATAAATCAATGTCTTAGGCTCTACAATATTATATTGGTAGTAGTTGACCGAATGAAAATGccc                                                                                                       <  2:283161/141‑1 (MQ=255)                                       aaGAACACTAATCATGGGACAATAAAGTATTGCTATAATAATTTAATCATTAAATGAAGGAATAGAGCCTAAGACATAATAAATCAATGTCTTAGGCTCTACAATATTATATTGGTAGTAGTTGACCGAATGAAAATGccc                                                                                                       >  1:297433/1‑141 (MQ=255)                                           acacTAATCATGGGACAATAAAGTATTGCTATAATAATTTAATCATTAAATGAAGGAATAGAGCCTAAGACATAATAAATCAATGTCTTAGGCTCTACAATATTATATTGGtagtag                                                                                                                           >  1:180385/1‑117 (MQ=255)                                           acacTAATCATGGGACAATAAAGTATTGCTATAATAATTTAATCATTAAATGAAGGAATAGAGCCTAAGACATAATAAATCAATGTCTTAGGCTCTACAATATTATATTGGtagtag                                                                                                                           <  2:180385/117‑1 (MQ=255)                                                        gACAATAAAGTATTGCTATAATAATTTAATCATTAAATGAAGGAATAGAGCCTAAGACATAATAAATCAATGTCTTAGGCTCTACAATATTATATTGGTAGTAGTTGACCGAATGAAAATGCCCATGTAACAAGCAttttt                                                                                      >  1:94775/1‑141 (MQ=255)                                                          cAATAAAGTATTGCTATAATAATTTAATCATTAAATGAAGGAATAGAGCCTAAGACATAATAAATCAATGTCTTAGGCTCTACAATATTATATTGGTAGTAGTTGACCGAATGAAAATGCCCATGTAACAAGCATTTTTCa                                                                                    <  2:133472/141‑1 (MQ=255)                                                                 gTATTGCTATAATCATTTAATCATTAAATGAAGGAATAGAGCCTAAGACATAATAAATCAATGTCTTAGGCTCTACAATATTATATTGGTAGTAGTTGACCGAATGAAAATGCCCATGTAACAAGCATTTTTCAATTATAg                                                                             >  2:133024/1‑141 (MQ=255)                                                                                 ttAATCATTAAATGAAGGAATAGAGCCTAAGACATAATAAATCAATGTCTTAGGCTCTACAATATTATATTGGTAGTAGTTGACCGAATGAAAATGCCCATGTAACAAGCATTTTTCAATTATAGGCGGGGCCCCAACATa                                                             >  2:308714/1‑141 (MQ=255)                                                                                                aGGAATAGAGCCTAAGACATAATAAATCAATGTCTTAGGCTCTACAATATTATATTGGTAGTAGTTGACCGAATGAAAATGCCCATGTAACAAGCATTTTTCAATTATAGGCGGGGCCCCAACATAGAGAATTTCAAAAAg                                              >  1:42514/1‑141 (MQ=255)                                                                                                 ggAATAGAGCCTAAGACATAATAAATCAATGTCTTAGGCTCTACAATATTATATTGGTAGTAGTTGACCGAATGAAAATGCCCATGTAACAAGCATTTTTCAATTATAGGCGGGGCCCCAACATAGAGAATTTCAAAAAGa                                             <  2:34593/141‑1 (MQ=255)                                                                                                             aaGACATAATAAATCAATGTCTTAGGCTCTACAATATTATATTGGTAGTAGTTGACCGAATGAAAATGCCCATGTAACAAGCATTTTTCAATTATAGGCGGGGCCCCAACATAGAGAATTTCAAAAAGAAATTCTACAGAc                                 <  2:326209/141‑1 (MQ=255)                                                                                                                   ttgatttattaTGTCTTAGGCTCTACAATATTATATTGGTAGTAGTTGACCGAATGAAAATGCCCATGTAACAAGCATTTTTCAATTATAGGCGGGGCCCCAACATAGAGAATTTCAAAAAGAAATTCTACAGACAATGCa                           >  2:265955/11‑141 (MQ=255)                                                                                                                      aaaaTCAATGTCTTAGGCTCTACAATATGATATTGGTAGTAGGTGAGCGAATGAAAATGCCCATGTAACAAGCATTTTTAAATTATAGGCGGGGCCCCAATAAAAAAAAAAAAAAAAAGAAATTCTACAGACAATGCAAGt                        <  2:377274/140‑1 (MQ=25)                                                                                                                         aTCAATGTCTTAGGCTCTACAATATTATATTGGTAGTAGTTGACCGAATGAAAATGCCCATGTAACAAGCATTTTTCAATTATAGGCGGGGCCCCAACATAGAGAATTTCAAAAAGAAATTCTACAGACAATGCAAGTTgg                     >  2:381198/1‑141 (MQ=255)                                                                                                                           cAATGTCTTAGGCTCTACAATATTATATTGGTAGTAGTTGACCGAATGAAAATGCCCATGTAACAAGCATTTTTCAATTATAGGCGGGGCCCCAACATAGAGAATTTCAAAAAGAAATTCTACAGACAATGCAAGTTgggg                   >  1:325876/1‑141 (MQ=255)                                                                                                                             aTGTCTTAGGCTCTACAATATTATATTGGTAGTAGTTGACCGAATGAAAATGCCCATGTAACAAGCATTTTTCAATTATAGGCGGGGCCCCAACATAGAGAATTTCAAAAAGAAATTCTACAGACAATGCAAGTTggggcc                 <  1:133024/141‑3 (MQ=255)                                                                                                                              tGTCTTAGGCTCTACAATATTATATTGGTAGTAGTTGACCGAATGAAAATGCCCATGTAACAAGCATTTTTCAATTATAGGCGGGGCCCCAACATAGAGAATTTCAAAAAGAAATTCTACAGACAATGCAAGTTGGGGTgg                <  2:386919/141‑1 (MQ=255)                                                                                                                                      gCTCTACAATATTATATTGGTAGTAGTTGACCGAATGAAAATGCCCATGTAACAAGCATTTTTCAATTATAGGCGGGGCCCCAACATAGAGAATTTCAAAAAGAAATTCTACAGACAATGCAAGTTGGGGTGGGCCCCAac        <  1:173994/141‑1 (MQ=255)                                                                                                                                        tctACAATATTATATTGGTAGTAGTTGACCGAATGAAAATGCCCATGTAACAAGCATTTTTCAATTATAGGCGGGGCCCCAACATAGAGAATTTCAAAAAGAAATTCTACAGACAATGCAAGTTGGGGTGGGCCCCAacac      <  1:366932/141‑1 (MQ=255)                                                                                                                                            cAATATTATATTGGTAGTAGTTGACCGAATGAAAATGCCCATGTAACAAGCATTTTTCAATTATAGGCGGGGCCCCAACATAGAGAATTTCACAAAGAAATTCTACAGACAATGCAAGTTGGGGTGGGCCGCAACACAGaa  >  1:335691/1‑141 (MQ=255)                                                                                                                                            |                                                                                                                                             AACGATTATTAAACTTTATAGTTACTATGTCTCATTAAAAGAACACTAATCATGGGACAATAAAGTATTGCTATAATAATTTAATCATTAAATGAAGGAATAGAGCCTAAGACATAATAAATCAATGTCTTAGGCTCTACAATATTATATTGGTAGTAGTTGACCGAATGAAAATGCCCATGTAACAAGCATTTTTCAATTATAGGCGGGGCCCCAACATAGAGAATTTCAAAAAGAAATTCTACAGACAATGCAAGTTGGGGTGGGCCCCAACACAGAA  >  CP000730/1172225‑1172504

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.