New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP000730	= 2693372	26 (0.850)	6 (0.210)	5/254	3.5	19.2%	intergenic (+43/+34)	USA300HOU_2547/USA300HOU_2548	TetR family transcriptional regulator/hypothetical protein
	?	CP000730	= 2693412	26 (0.910)					coding (162/168 nt)	USA300HOU_2548	hypothetical protein
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

GCGAAGATATTGATAACATTTTCCATAGATTAATCAATATTAAGATTAAATAGTAGATGAGAAACTCATGAGCGTTACCAACATTCATAATAAAAACGATAGTGTACACGTTAATGAATTCGTGTACTACTATCGTTTTTTATTTTTATCGTGCTTATCGCTATTAAAACAACTGATACACAACACATAAACTATGAAGAAAAAAATAAATCCGCTATCTAAATGACTTTGACTCAGTTGTTTAAATGACCAAATTGCTAATACAATTCCCATT  >  CP000730/2693277‑2693550                                                                                                                                        |                                                                                                                                           gCGAAGATATTGATAACATTTTCCATAGATTAATCAATATTAAGATTAAATAGTAGATGAGAAACTCATGAGCGTTACCAACATTCATAATAAAAACGATAGTGTACACGTTAATGAATTCGTGTACTACTATCGtttttt                                                                                                                                       <  2:309512/141‑1 (MQ=255)     aGATATTGATAACCTTTTCCATAGATTAATCAATATTAAGATTAAATAGTAGATGAGAAACTCATGAGCGTTACCAACATTCATAATAAAAACGATAGTGTACACGTTAATGAATTCGTGTACTACTATCGTtttttattt                                                                                                                                   <  2:313552/141‑1 (MQ=255)       atatTGATAACATTTTCCATAGATTAATCAATATTAAGATTAAATAGTAGATGAGAAACTCATGAGCGTTACCAACATTCATAATAAAAACGATAGTGTACACGTTAATGAATTCGTGTACTACTATCGTtttttattttt                                                                                                                                 <  2:207081/141‑1 (MQ=255)              tAACATTTTCCATAGATTAATCAATATTAAGATTAAATAGTAGATGAGAAACTCATGAGCGTTACCAACATTCATAATAAAAACGATAGTGTACACGTTAATGAATTCGTGTACTACTATCGTTTTTTATTTTTATCGTGc                                                                                                                          <  1:64547/141‑1 (MQ=255)              tAACATGTTCCAGAGATTAATCAATATTAAGATTAAATAGTAGTTGAGAAACTCATGAGCGTTGCCAACATTCATAATAAAAACGATAGTGTACACGTTAATGAATTCGTGTACTACTATCGTTTTTTATTTTTATCGTGc                                                                                                                          <  1:115801/141‑1 (MQ=255)                   ttttCCATAGATTAATCAATATTAAGATTAAATAGTAGATGAGAAACTCATGAGCGTTACCAACATTCATAATAAAAACGATAGTGTACACGTTAATGAATTCGTGTACTACTATCGTTTTTTATTTTTATCGTGCTTATc                                                                                                                     <  1:41371/141‑1 (MQ=255)                    tggccgcataTTTATCAATATTAAGATTAAATAGTATATGGGAAACTCGTGAGCTTTACCAACATTCATAATAAAAACGATAGTGTACACGCTAATGAATTCGTGTACTACTATCGTTTTTTATTTTTATCGTGCTTATCg                                                                                                                    <  2:297039/132‑1 (MQ=255)                       ccATAGATTAATCAATATTAAGATTAAATAGTAGATGAGAAACTCATGAGCGTTACCAACATTCATAATAAAAACGATAGTGTACACGTTAATGAATTCGTGTACTACTATCGTTTTTTATTTTTATCGTGCTTATCGCTa                                                                                                                 >  1:154035/1‑141 (MQ=255)                                 aTCAATATTAAGATTAAATAGTAGATGAGAAACTCATGAGCGTTACCAACATTCATAATAAAAACGATAGTGTACACGTTAATGAATTCGTGTACTACAATCGTTTTTTATTTTTATCGTGCTTATCGCTATTAAaacaac                                                                                                       >  1:17003/1‑141 (MQ=255)                                  tCAATATTAAGATTAAATAGTAGATGAGAAACTCATGAGCGTTACCAACATTCATAATAAAAACGATAGTGTACACGTTAATGAATTCGTGTACTACTATCGTTTTTTATTTTTATCGTTCTTATCGCTATTAAAACAACt                                                                                                      >  1:134487/1‑141 (MQ=255)                                  tCAATATTAAGATTAAATAGTAGATGAGAAACTCATGAGCGTTACCAACATTCATAATAAAAACGATAGTGTACACGTTAATGAATTCGTGTACTACTATCGTTTTTTATTTTTATCGTGCTTATCGCTATTAAAACAACt                                                                                                      <  2:224741/141‑1 (MQ=255)                                            gATTAAATAGTAGATGAGAAACTCATGAGCGTTACCAACATTCATAATAAAAACGATAGTGTACACGATAATGAATTCGTGTACTACTATCGTTTTTTATTTTTATCGTGCTTATCGCTATTAAAACAACTGATacacaac                                                                                            >  1:89528/1‑141 (MQ=255)                                              taaaataataaagaagaAACTCATTAGCGTTACCAACATTCATAATAAAAACGATAGTGTACACGTTAATGAATTCGTTTACTACTATCGTTTTTTATTTGTATCTTGCGTAACGCTATTAAAACAACTGATacacaacac                                                                                          <  2:217976/127‑1 (MQ=255)                                                          tGAGAAACTCATGAGCGTTACCAACATTCATAATAAAAACGATAGTGTACACGTTAATGAATTCGTGTACTACTATCGTTTTTTATTTTTATCGTGCTTATCGCTATTAAAACAACTGATACACAACACATAAACTATgaa                                                                              >  1:331560/1‑141 (MQ=255)                                                           gagaAACTCATGAGCGTTACCAACATTCATAATAAAAACGATAGTGTACACGTTAATGAATTCGTGTACTACTATCGTTTTTTATTTTTATCGTGCTTATCGCTATTAAAACAACTGATACACAACACATAAACTATgaag                                                                             >  1:296718/1‑141 (MQ=255)                                                                  acATGAGCGTTACCAACATTCATAATAAAAACGATAGTGTACACGTTAATGAATTCGTGTACTACTATCGTTTTTTATTTTTATCGTGCCTATCGCTCTTACAACAACTGATCCACAACACATCACCCATGAAGtaaaaaa                                                                      >  2:93306/2‑141 (MQ=255)                                                                           ttACCAACATTCATAATAAAAACGATAGTGTACACGTTAATGAATTCGTGTACTACTATCGTTTTTTATTTTTATCGTGCTTATCGCTATTAAAACAACTGATACACAACACATAAACTATGAAGAAAAAAATAAATCCGc                                                             <  1:222773/141‑1 (MQ=255)                                                                                aaCATTCATAATAAAAACGATAGTGTACACGTTAATGAATTCGTGTACTACTATCGTTTTTTATTTTTATCGTGCTTa                                                                                                                       <  1:56500/78‑1 (MQ=255)                                                                                aaCATTCATAATAAAAACGATAGTGTACACGTTAATGAATTCGTGTACTACTATCGTTTTTTATTTTTATCGTGCTTa                                                                                                                       >  2:56500/1‑78 (MQ=255)                                                                                 aCATTCATAATAAAAACGATAGTGTACACGTTAATGAATTCGTGTACTACTATCGTTTTTTATTTTTATCGTGCTTATCGCTATTAAAACAACTGATACACAACACATAAACTATGAAGAAAAAAATAAATCCGCTATCTa                                                       >  1:51832/1‑141 (MQ=255)                                                                                       ataataAAAACGATAGTGTACACGTTAATGAATTCGTGTACTACTATCGTTTTTTATTTTTATCGTGCTTATCGCTATTAAAACAACTGATACACAACACATAAACTATGAAGAAAAAAATAAATCCGCTATCTAAATGAc                                                 <  1:207932/141‑1 (MQ=255)                                                                                                  gATATTGTACACGCTAATGAATTCGTGTACAACTATCATTTTTTATTTTTATCGTGCTTATCGCTATTAAAACAACTGATACACAACACAGAAACTATGAAGAAAAAAATAAATACGCTATTGAAATGACTTAGACTTAgt                                      >  2:205586/1‑141 (MQ=255)                                                                                                     aGTGTACACGTTAATGAATTCGTGTACTACTATCGTTTTTTATTTTTATCGTGCTTATCGCTATTAAAACAACTGATACACAACACATAAACTATGAAGAAAAAAATAAATCCGCTATCTAAATGACTTTGACTCAgttgt                                   <  2:132313/141‑1 (MQ=255)                                                                                                                    attaacGTGTACTACTATCGTTTTTTATTTTTATGGTGCTTATCGCTATTAAAACAACTGATACACAACACATAAACTATGAAGAAAAAAATAAATCCGCTATCTAAATGACTTTGACTCAGTTGTTTAAATGACCAAAtt                    >  1:269654/6‑141 (MQ=255)                                                                                                                       ttCGTGTACTACTATCGTTTTTTATTTTTATCGTTCTTATCGCTATTAAAACAACTGATACACAACACATAAACTATGAAGAAAAAAAAAAATCCGCTATCTAAATGAATTTGACTCCGTTGTTTAAATTACCAAATTGCt                 >  1:357979/1‑141 (MQ=255)                                                                                                                           tgtACTACTATCGTTTTTTATTTTTATCGTGCTTATCGCTATTAAAACAACTGATACACAACACATAAACTATGAAGAAAAAAATAAATCCGCTATCTAAATGACTTTGACTCAGTTGTTTAAATGACCAAATTGCTAATa             <  2:208702/141‑1 (MQ=255)                                                                                                                                      cGTTTTTTATTTTTATCGTGCTTATCGCTATTAAAACAACTGATACACAACACATAAACTATGAAGAAAAAAATAAATCCGCTATCTAAATGACTTTGACTCAGTTGTTTAAATGACCAAATTGCTAATACAATTCCCatt  >  1:311419/1‑141 (MQ=255)                                                                                                                                        |                                                                                                                                           GCGAAGATATTGATAACATTTTCCATAGATTAATCAATATTAAGATTAAATAGTAGATGAGAAACTCATGAGCGTTACCAACATTCATAATAAAAACGATAGTGTACACGTTAATGAATTCGTGTACTACTATCGTTTTTTATTTTTATCGTGCTTATCGCTATTAAAACAACTGATACACAACACATAAACTATGAAGAAAAAAATAAATCCGCTATCTAAATGACTTTGACTCAGTTGTTTAAATGACCAAATTGCTAATACAATTCCCATT  >  CP000730/2693277‑2693550

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ 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.