New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP000730	= 1040370	23 (0.610)	5 (0.150)	4/250	5.1	19.7%	intergenic (‑6787/‑919)	USA300HOU_0983/USA300HOU_0984	competence protein/glycosyltransferase
	?	CP000730	= 1040397	20 (0.590)					intergenic (‑6814/‑892)	USA300HOU_0983/USA300HOU_0984	competence protein/glycosyltransferase
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

AACACATGATATGGCTATTGCAAATCAATGTGACGAAATAATAGATTTAGAACAGTATAGAAAAGTAGCATCTATGTGATATCCAAAAGATAAAATTAAAAGCCAATCAATGGGAAATGTTGACTTCAACACTCCGTTTGATTGGCTTTTATACTGTGTTACTAAGTTATGAAAGTAACAACGGCAAACTGAAAAAAAGCAATATAATAATATTTAATACGATTAGTAATAAATGTAATTGATTTTTCGTTTTAATATAGCAAAAAACAATGAC  >  CP000730/1040261‑1040534                                                                                                                                         |                                                                                                                                          aaCACATGATATGGCTATTGCAAATCAATGTGACGAAATAATAGATTTAGAACAGTATAGAAAAGTAGCATCTATGTGATATCCAAAAGATAAAATTAAAAGCCAATCAATGGGAAATGTTGACTTCAACACTCCGTTTGa                                                                                                                                       >  2:186677/1‑141 (MQ=255) aaCACATGATATGGCTATTGCAAATCAATGTGACGAAATAATAGATTTAGAACAGTATAGAAAAGTAGCATCTATGTGATATCCAAAAGATAAAATTAAAAGCCAATCAATGGGAAATGTTGACTTCAACACTCCGTTTGa                                                                                                                                       <  1:180846/141‑1 (MQ=255) aaCACATGATATGGCTATTGCAAATCAATGTGACGAAATAATAGATTTAGAACAGTATAGAAAAGTAGCATCTATGTGATATCCAAAAGATAAAATTAAAAGCCAATCAATGGGAAATGTTGACTTCAACACTCCGTTTGa                                                                                                                                       <  1:180784/141‑1 (MQ=255)  acacATGATATGGCTATTGCAAATCAATGTGACGAAATAATAGATTTAGAACAGTATAGAAAAGTAGCATCTATGTGATATCCAAAAGATAAAATTAAAAGCCAATCAATGGGAAATGTTGACTTCAACACTCCGTTTGAt                                                                                                                                      >  1:135185/1‑141 (MQ=255)                      aaaTCAATGTGACGAAATAATAGATTTAGAACAGTATAGAAAAGTAGCATCTATGTGATATCCAAAAGATAAAATTAAAAGCCAATCAATGGGAAATGTTGACTTCAACACTCCGTTTGATTGGCTTTTATACTGTGTTAc                                                                                                                  <  1:300224/141‑1 (MQ=255)                             tgtgACGAAATAATAGATTTAGAACAGTATAGAAAAGTAGCATCTATGTGATATCCAAAAGATAAAATTAAAAGCCAATCAATGGGAAATGTTGACTTCAACACTCCGTTTGATTGGCTTTTATACTGTGTTACTAAGTTa                                                                                                           >  2:277547/1‑141 (MQ=255)                                 aCGAAATAATAGATTTAGAACAGTATAGAAAAGTAGCATCTATGTGATATCCAAAAGATAAAATTAAAAGCCAATCAATGGGAAATGTTGACTTCACCACTCCGTTTGATTGGCTTTTATACTGTGTTACTAAGTTATGaa                                                                                                       >  1:142241/1‑141 (MQ=255)                                 aCGAAATAATAGATTTAGAACAGTATAGAAAAGTAGCATCTATGTGATATCCAAAAGATAAAATTAAAAGCCAATCAATGGGAAATGTTGACTTCAACACTCCGTTTGATTGGCTTTTATACTGTGTTACTAAGTTATGaa                                                                                                       <  1:159705/141‑1 (MQ=255)                                   gAAATAATAGATTTAGAACAGTATAGAAAAGTAGCATCTATGTGATATCCAAAAGATAAAATTAAAAGCCAATCAATGGGAAATGTTGACTTCAACACTCCGTTTGATTGGCTTTTATACTGTGTTACtttcataacttag                                                                                                     <  1:322868/141‑13 (MQ=255)                                   gAAATAATAGATTTAGAACAGTATAGAAAAGTAGCATCTATGTGATATCCAAAAGATAAAATTAAAAGCCAATCAATGGGAAATGTTGACTTCAACACTCCGTTTGATTGGCTTTTATACTGTGTTACTAAGTTATGAAAg                                                                                                     <  1:247849/141‑1 (MQ=255)                                        aataGATTTAGAACAGTATAGAAAAGTAGCATCTATGTAATATCCAAAAGATAAAATTAAAAGCCAATCAATGGGAAATGTTGACTTCAACACTCCGTTTGATTGGCTTTTATACCGTGTTACTAAGTTATGAAAGTaaca                                                                                                <  1:263249/141‑1 (MQ=255)                                            gATTTAGAACAGTATAGAAAAGTAGCATCTATGTGATATCCAAAAGATAAAATTAAAAGCCAATCAATGGGAAATGTTGACTTCAACACTCCGTTTGATTGGCTTTTATACTGTGTTACTAAGTTATgttgcgctagtgtc                                                                                            >  1:349137/1‑128 (MQ=255)                                                     cAGTATAGAAAAGTAGCATCTATGTGATATCCAAAAGATAAAATTAAAAGCCAATCAATGGGAAATGTTGACTTCAACACTCCGTTTGATTGGCTTTTATACTGTGTTACTAAGTTATGAAAGTAACAACGGCAAACTGaa                                                                                   >  2:12820/1‑141 (MQ=255)                                                       gTATAGAAAAGTAGCATCTATGTGATATCCAAAAGATAAAATTAAAAGCCAATCAATGGGAAATGTTGACTTCAACACTCCGTTTGATTGGCTTTTATACTGTGTTACTAAGTTATGAAAGTAACAACGGCAAACTGaaaa                                                                                 >  1:368200/1‑141 (MQ=255)                                                                                                  aaaaGCCAATCAATGGGAAATGTTGACTTCCACACTCCGTTTGATTGGCTTTTATACTGTGTTACTAAGTTATGCAAGTAACAACGGCAAACTGACATAAAGCAATATAATAATATTTAATTCGATTAGTAATAAATGTaa                                      >  2:193641/1‑141 (MQ=255)                                                                                                    aaGCCAATCAATGGGAAATGTTGACTTCAACACTCCGTTTGATTGGCTTTTATACTGTGTTACTAAGTTATGAAAGTAACAACGGCAAACTGAAAAAAAGCAATATAATAATATTTAATACGATTAGTAATAAATGTAAtt                                    <  1:222483/141‑1 (MQ=255)                                                                                                              atGGGAAATGTTGACTTCAACACTCCGTTTGATTGGCTTTTATACTGTGTTACTAAGTTATGAAAGTAACAACGGCAAACTGAAAAAAAGCAATATAATAATATTTAATACGATTAGTAATAAATGTAATTGATTTTTCGt                          >  2:349026/1‑141 (MQ=255)                                                                                                                    aaTGTTGACTTCAACACTCCGTTTGATTGGCTTTTATACTGTGTTACTAAGTTATGCAAGTAACAACGGCAAACTGAAAAAAAGCACTATAATAATATTTAATACGATTAGTAATAAATGTAATTGATTTTTCGTTTTAat                    >  2:412937/1‑141 (MQ=255)                                                                                                                         tGACTTCAACACTCCGTTTGATTGGCTTTTATACTGTGTTACTAAGTTATGAAAGTAACAACGGCAAACTGAAAAAAAGCAATATAATAATATTTAATACGATTAGTAATAAATGTAATTGATTTTTCGTTTTAATATAGc               <  1:173611/141‑1 (MQ=255)                                                                                                                          gACTTCAACACTCCGTTTGATTGGCTTTTATACTGTGTTACTAAGTTATGAAAGTAACAACGGCAAACTGAAAAAAAGCAATATAATAATATTTAATACGATTAGTAATAAATGTAATTGATTTTTCGTTTTAATATAGCa              <  1:12820/141‑1 (MQ=255)                                                                                                                            cTTCAACACTCCGTTTGATTGGCTTTTATACTGTGTTACTAAGTTATGAAAGTAACAACGGCAAACTGAAAAAAAGCAATATAATAATATTTAATACGATTAGTAATAAATGTAATTGATTTTTCGTTTTAATATAGCaaa            <  1:58971/141‑1 (MQ=255)                                                                                                                                      ccGTTTGATTGGCTTTTATACTGTGTTACTAAGTTATGAAAGTAACAACGGCAAACTGAAAAAAAGCAATATAATAATATTTAATACGATTAGTAATAAATGTa                                       >  2:263938/1‑104 (MQ=255)                                                                                                                                      ccGTTTGATTGGCTTTTATACTGTGTTACTAAGTTATGAAAGTAACAACGGCAAACTGAAAAAAAGCAATATAATAATATTTAATACGATTAGTAATAAATGTa                                       <  1:263938/104‑1 (MQ=255)                                                                                                                                      ccGTTTGATTGGCTTTTATACTGTGTTACTAAGTTATGAAAGTAACAACGGCAAACTGAAAAAAAGCAATATAATAATATTTAATACGATTAGTAATAAATGTAATTGATTTTTCGTTTTAATATAGCAAAAAACAATGAc  <  1:361145/141‑1 (MQ=255)                                                                                                                                         |                                                                                                                                          AACACATGATATGGCTATTGCAAATCAATGTGACGAAATAATAGATTTAGAACAGTATAGAAAAGTAGCATCTATGTGATATCCAAAAGATAAAATTAAAAGCCAATCAATGGGAAATGTTGACTTCAACACTCCGTTTGATTGGCTTTTATACTGTGTTACTAAGTTATGAAAGTAACAACGGCAAACTGAAAAAAAGCAATATAATAATATTTAATACGATTAGTAATAAATGTAATTGATTTTTCGTTTTAATATAGCAAAAAACAATGAC  >  CP000730/1040261‑1040534

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.