New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP000730	= 2376100	37 (1.030)	5 (0.140)	3/280	3.5	10.6%	coding (45/96 nt)	USA300HOU_2236	hypothetical protein
	?	CP000730	2376113 =	47 (1.310)					coding (32/96 nt)	USA300HOU_2236	hypothetical protein
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

GTAAAGCATCAGCAATATCTCTTGCGACTGATGGTTTTTCAGCTAATATTAAAGATTTCATAAATTATCCTTTCTCATACGTTCTTTTATTTCGAACGTGCTTCATCTATTCCACTAATCTTTGATTTAAATTCAATGATTGCAAATGATGTGTTAAATGTATTGTAACATGTTAATATCACTATTAACTTTCATTTCAGTTGAAATACTATATAATAAAAGTAACAAAAAGTACGGAGGTAATGACATGAGCATAGTTCAGTTATATGATATTACAC  >  CP000730/2375963‑2376240                                                                                                                                          |                                                                                                                                             gTAAAGCATCAGCAATATCTCTTGCGACTGATGGTTTTTCAGCTAATATTATAGATTTCATAAATTATCCTTTCTCATACGTTCTTTTATTTCGAACGTGCTTCATCTATTCCACTAATCTTTGATTTAAATTCAATGAtt                                                                                                                                           <  1:44763/141‑1 (MQ=255) gTAAAGCATCAGCAATATCTCTTGCGACTGATGGTTTTTCAGCTAATATTAAAGATTTCATAAATTATCCTTTCTCATACGTTCTTTTATTTCGAACGTGCTTCATCTATTCCACTAATCTTTGATTTAAATTCAATGAtt                                                                                                                                           <  1:44759/141‑1 (MQ=255)                       tGCGACTGATGGTTTTTCAGCTAATATTAAAGATTTCATAAATTATCCTTTCTCATACGTTCTTTTATTTCGAACGTGCTTCATCTATTCCACTAATCTTTGATTTAAATTCAATGATTGCAAATGATGTGTTAAATGTAt                                                                                                                     >  2:344949/1‑141 (MQ=255)                       ggCGACGGATGGTTTTTCAGCTAATATTAAAGGTTTCATAAATTATCCTTTCTCATACGTTCTTTTATTTCGAACGTGCTTCATCTATTCCACTAATCTTTGATTTAAATTCAATGATTGCAAATGATTTTGTAAATGTAt                                                                                                                     >  2:144176/2‑141 (MQ=255)                          gACTGATGGTTTTTCAGCTAATATTAAAGATTTCATAAATTATCCTTTCTCATACGTTCTTTTATTTCGAACGTGCTTCATCTATTCCACTAATCTTTGATTTAAATTCAATGATTGCAAATGATGTGTTAAATGTATTGt                                                                                                                  >  2:405395/1‑141 (MQ=255)                                                atTAAAGATTTCATAAATTATCCTTTCTCATACGTTCTTTTATTTCGAACGTGCTTCATCTATTCCACTAATCTTTGATTTAAATTCAATGATTGCAAATGATGTGTTAAATGTATTGTAACATGTTAATATCACTATTaa                                                                                            >  2:6222/1‑141 (MQ=255)                                                atTAAAGATTTCATAAATTATCCTTTCTCATACGTTCTTTTATTTCGAACGTGCTTCATCTATTCCACTAATCTTTGATTTAAATTCAATGATTGCAAATGATGTGTTAAATGTATTGTAACATGTTAATATCACTATTaa                                                                                            >  2:53308/1‑141 (MQ=255)                                                          tCATAAATTATCCTTTCTCATACGTTCTTTTATTTCGACCGTGCTTCATCTATTCCACTAATCTTTGATTTAAATTCAATGATTGCAAATGATGTGTTAAATGTATTGTAACATGTTAATATAACTATTAACtttcatttt                                                                                  >  2:48777/1‑140 (MQ=255)                                                          tCATAAATTATCCTTTCTCATACGTTCTTTTATTTCGAACGTGCTTCATCTATTCCACTAATCTTTGATTTAAATTCAATGATTGCAAATGATGTGTTAAATGTATTGTAACATGTTAATATCACTATTAACtttcatttc                                                                                  >  2:48469/1‑141 (MQ=255)                                                          tCATAAATTATCCTTTCTCATACGTTCTTTTATTTCGAACGTGCTTCATCTATTCCACTAATCTTTGATTTAAATTCAATGATTGCAAATGATGTGTTAAATGTATTGTAACATGTTAATATCACTATTAACtttcatttc                                                                                  >  1:87637/1‑141 (MQ=255)                                                          tCATAAATTATCCTTTCTCATACGTTCTTTTATTTCGAACGTGCTTCATCTATTCCACTAATCTTTGATTTAAATTCAATGATTGCAAATGATGTGTTAAATGTATTGTAACATGTTAATATCACTATTAACtttcatttc                                                                                  >  1:40756/1‑141 (MQ=255)                                                          tCATAAATTATCCTTTCTCATACGTTCTTTTATTTCGAACGTGCTTCATCTATTCCACTAATCTTTGATTTAAATTCAATGATTGCAAATGATGTGTTAAATGTATTGTAACATGTTAATATCACTATTAACtttcatttc                                                                                  >  1:235995/1‑141 (MQ=255)                                                           cATAAATTATCCTTTCTCATACGTTCTTTTATTTCGAACGTGCTTCATCTATTCCACTAATCTTTGATTTAAATTCAATGATTGCAAATGATGTGTTAAATGTATTGTAACATGTTAATATCACTATTAACtttcatttca                                                                                 <  1:309413/141‑1 (MQ=255)                                                            aTAAATTATCCTTTCTCATACGTTCTTTTATTTCGAACGTGCTTCATCTATTCCACTAATCTTTGATTTAAATTCAATG‑‑‑‑‑‑‑‑‑‑‑‑GTGTTAAATGTATTGTAACATGTTAATATCACTATTAACTTTCATTTCAGTTGAAATACtat                                                                    >  2:240926/1‑141 (MQ=255)                                                             tAAATTATCCTTTCTCATACGTTCTTTTATTTCGAACGTGCTTCATCTATTCCACTAATCTTTGATTTAAATTCAATGATTGCAAATGATGTGTTAAATGTATTGTAACATGTTAATATCACTATTAACTTTCATTTCAGt                                                                               <  1:353362/141‑1 (MQ=255)                                                             tAAATTATCCTTTCTCATACGTTCTTTTATTTCGAACGTGCTTCATCTATTCCACTAATCTTTGATTTAAATTCAATGATTGCAAATGATGTGTTAAATGTATTGTAACATGTTAATATCACTATTAACTTTCATTTCAGt                                                                               <  1:209772/141‑1 (MQ=255)                                                                aTTATCCTTTCTCATACGTTCTTTTATTTCGAACGTGCTTCATCTATTCCACTAATCTTTGATTTAAATTCAATGATTGTAAATGATGTGTTAAATGTATTGTAACATGTTAATATCACTATTAACTTTCATTTCAGTTGa                                                                            >  1:135221/1‑141 (MQ=255)                                                                        ttCTCATACGTTCTTTTATTTCGAACGTGCTTCATCTATTCCACTAATCTTTGATTTAAATTCAATTATTGCAAATGATGTGTTAAATGTATTGTAACATGTTAATATCACTATTAACTTTCATTTCAGTTGAAATACtat                                                                    <  1:92504/141‑1 (MQ=255)                                                                        ttCTCATACGTTCTTTTATTTCGAACGTGCTTCATCTATTCCACTAATCTTTGATTTAAATTCAATGATTGCAAATGATGTGTTAAATGTATTGTAACATGTTAATATCACTATTAACTTTCATTTCAGTTGAAATACtat                                                                    <  1:326202/141‑1 (MQ=255)                                                                        ttCTCATACGTTCTTTTATTTCGAACGTGCTTCATCTATTCCACTAATCTTTGATTTAAATTCAATGATTGCAAATGATGTGTTAAATGTATTGTAACATGTTAATATCACTATTAACTTTCATTTCAGTTGAAATACtat                                                                    <  1:262005/141‑1 (MQ=255)                                                                          ctcATACGTTCTTTTATTTCGAACGTGCTTCCTCTATTCCACTAATCTTTGATTTAAATTCAATGATTGCAAATGATGTGTTAAATGTATTGTAACATGTTAATATCACTATTAACTTTCATTTCAGTTGAAATACtatat                                                                  <  1:184617/141‑1 (MQ=255)                                                                          ctcATACGTTCTTTTATTTCGAACGTGCTTCATCTATTCCACTAATCTTTGATTTAAATTCAATGATTGCAAATGATGTGTTAAATGTATTGTAACATGTTAATATCACTATTAACTTTCATTTCAGTTGAAATACtatat                                                                  <  2:184436/141‑1 (MQ=255)                                                                          ctcATACGTTCTTTTATTTCGAACGTGCTTCATCTATTCCACTAATCTTTGATTTAAATTCAATGATTGCAAATGATGTGTTAAATGTATTGTAACATGTTAATATCACTATTAACTTTCATTTCAGTTGAAATACtatat                                                                  <  2:313488/141‑1 (MQ=255)                                                                          ctcATACGTTCTTTTATTTCGAACGTGCTTCATCTATTCCACTAATCTTTGATTTAAATTCAATGATTGCAAATGATGTGTTAAATGTATTGTAACATGTTAATATCACTATTAACTTTCATTTCAGTTGAAATACtatat                                                                  <  1:12189/141‑1 (MQ=255)                                                                          ctcATACGTTCTTTTATTTCGAACGTGCTTCATCTATTCCACTAATCTTTGATTTAAATTCAATGATTGCAAATGATGTGTTAAATGTATTGTAACATGTTAATATCACTATTAACTTTCATTTCAGTTGAAATACtatat                                                                  <  1:135767/141‑1 (MQ=255)                                                                          ctcATACGTTCTTTTATTTCGAACGTGCTTCATCTATTCCACTAATCTTTGATTTAAATTCAATGATTGCAAATGATGTGTTAAATGTATTGTAACATGTTAATATCACTATTAACTTTCATTTCAGTTGAAATACtatat                                                                  <  2:131384/141‑1 (MQ=255)                                                                                            tCGAACGTGCTTCATCTATTCCACTAATCTTTGATTTAAATTCAATGATTGCAAATGATGTGTTAAATGTATTGTAACATGTTAATATCACTATTAACTTTCATTTCAGTTGAAATACTATATAATAAAAGTAACAAAAAg                                                <  1:113219/141‑1 (MQ=255)                                                                                               aaCTTGCTTCATCTATTCCACTAATCTTTGATTTAAATTCAATG‑‑‑‑‑‑‑‑‑‑‑‑GTGTTAAATGTATTGTAACATGTTAATATCACTATTAACTTTCATTTCAGTTGAAATACTATATAATAAAAGTAACAAAAAGTACGGAGGTAATGAc                                 <  2:6454/141‑1 (MQ=255)                                                                                               aaCGTGCTTCATCTATTCCACTAATCTTTGATTTAAATTCAATG‑‑‑‑‑‑‑‑‑‑‑‑GTGTTAAATGTATTGTAACATGTTAATATCACTATTAACTTTCATTTCAGTTGAAATACTATATAATAAAAGTAACAAAAAGTACGGAGGTAATGAc                                 <  2:401932/141‑1 (MQ=255)                                                                                               aaCGTGATTCATCTATTCCACTAATCTTTGATTTAAATTCAATG‑‑‑‑‑‑‑‑‑‑‑‑GTGTTAAATGTATTGTAACATGTTAATATCACTATTAACTTTCATTTCAGTTGAAATACTATATAAAAAAAAAAAAAAAAAGTACGGAGGTAATGAc                                 <  2:401988/141‑1 (MQ=255)                                                                                                   tGCTTCATCTATTCCACTAATCTTTGATTTAAATTCAATGATTGCAAATGATGTGTTAAATGTATTGTAACATGTTAATATCACTATTAACTTTCATTTCAGTTGAAATACTATATAATAAAAGTAACAAAAAGTACGGAg                                         <  2:280069/141‑1 (MQ=255)                                                                                                   tGCTTCATCTATTCCACTAATCTTTGATTTAAATTCAATGATTGCAAATGATGTGTTAAATGTATTGTAACATGTTAATATCACTATTAACTTTCATTTCAGTTGAAATACTATATAATAAAAGTAACAAAAAGTACGGAg                                         <  1:318758/141‑1 (MQ=255)                                                                                                   tGCTTCATCTATTCCACTAATCTTTGATTTAAATTCAATGATTGCAAATGATGTGTTAAATGTATTGTAACATGTTAATATCACTATTAACTTTCATTTCAGTTGAAATACTATATAATAAAAGTAACAAAAAGTACGGAg                                         <  1:165677/141‑1 (MQ=255)                                                                                                   tGCTTCATCTATTCCACTAATCTTTGATTTAAATTCAATGATTGCAAATGATGTGTTAAATGTATTGTAACATGTTAATATCACTATTAACTTTCATTCCAGTTGAAATACTATATAATAAAAGTAACAAAAAGTACGGAg                                         <  1:356182/141‑1 (MQ=255)                                                                                                               tCCACTAATCTTTGATTTAAATTCAATGATTGCAAATGATGTGTTAAATGTATTGTAACATGTTAATATCACTATTAACTTTCATTTCAGTTGAAATACTATATAATAAAAGTAACAAAAAGTACGGAGGTAATGACATGa                             >  1:94002/1‑141 (MQ=255)                                                                                                               tCCACTAATCTTTGATTTAAATTCAATGATTGCAAATGATGTGTTAAATGTATTGTAACATGTTAATATCACTATTAACTTTCATTTCAGTTGAAATACTATATAATAAAAGTAACAAAAAGTACGGAGGTAATGACATGa                             >  1:116020/1‑141 (MQ=255)                                                                                                                ccACTAATCTTTGATTTAAATTCAATGATTGCAAATGATGTGTTAAATGTATTGTAACATGTTAATATCACTATTAACTTTCATTTCAGTTGAAATACTATATAATAAAAGTAACAAAAAGTACGGAGGTAATGACATGAg                            <  2:17537/141‑1 (MQ=255)                                                                                                                     aaTCTTTGATTTAAATTCAATGATTGCAAATGATGTGTTAAATGTATTGTAACATGTTAATATCACTATTAACTTTCATTTCAGTTGAAATACTATATAATAAAAGTAACAAAAAGTACGGAGGTAATGACATGAGCATAg                       >  1:117077/1‑141 (MQ=255)                                                                                                                     aaTCTTTGATTTAAATTCAATGATTGCAAATGATGTGTTAAATGTATTGTAACATGTTAATATCACTATTAACTTTCATTTCAGTTGAAATACTATATAATAAAAGTAACAAAAAGTACGGAGGTAATGACATGAGCATAg                       <  1:27659/141‑1 (MQ=255)                                                                                                                       tCTTTGATTTAAATTCAATGATTGCAAATGATGTGTTAAATGTATTGTAACATGTTAATATCACTATTAACTTTCATTTCAGTTGCAATACTATATAATAAAAGTAACAAAAAGTACGGAGGTAATGACATGAGCATAGtt                     <  1:145449/141‑1 (MQ=255)                                                                                                                                          gATTGCAAATGATGTGTTAAATGTATTGTAACATGTTAATATCACTATTAACTTTCATTTCAGTTGAAATACTATATAATAAAAGTAACAAAAAGTACGGAGGTAATGACATGAGCATAGTTCAGTTATATGATATTacac  >  1:159218/1‑141 (MQ=255)                                                                                                                                          |                                                                                                                                             GTAAAGCATCAGCAATATCTCTTGCGACTGATGGTTTTTCAGCTAATATTAAAGATTTCATAAATTATCCTTTCTCATACGTTCTTTTATTTCGAACGTGCTTCATCTATTCCACTAATCTTTGATTTAAATTCAATGATTGCAAATGATGTGTTAAATGTATTGTAACATGTTAATATCACTATTAACTTTCATTTCAGTTGAAATACTATATAATAAAAGTAACAAAAAGTACGGAGGTAATGACATGAGCATAGTTCAGTTATATGATATTACAC  >  CP000730/2375963‑2376240

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.