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.

CGATGAAAATAAAGTGCTGATTTTAGCAACACATGATATGGCTATTGCAAATCAATGTGACGAAATAATAGATTTAGAACAGTATAGAAAAGTAGCATCTATGTGATATCCAAAAGATAAAATTAAAAGCCAATCAATGGGAAATGTTGACTTCAACACTCCGTTTGATTGGCTTTTATACTGTGTTACTAAGTTATGAAAGTAACAACGGCAAACTGAAAAAAAGCAATATAATAATATTTAATACGATTAGTAATAAATGTAATTGATTTTTCGT  >  CP000730/1040234‑1040510                                                                                                                                         |                                                                                                                                             cGATGAAAATAAAGTGCTGATTTTAGCAACACATGATATGGCTATTGCAAATCAATGTGACGAAATAATAGATTTAGAACAGTATAGAAAAGTAGCATCTATGTGATATCCAAAAGATAAAATTAAAAGCCAATCAATggg                                                                                                                                          <  1:199305/141‑1 (MQ=255)   aTGAAAATAAAGTGCTGATTTTAGCAACACATGATATGGCTATTGCAAATCAATGTGACGAAATAATAGATTTAGAACAGTATAGAAAAGTAGCATCTATGTGATATCCAAAAGATAAAATTAAAAGCCAATCAATGGGaa                                                                                                                                        >  1:32694/1‑141 (MQ=255)     gAAAATAAAGTGCTGATTTTAGCAACACATGATATGGCTATTGCAAATCAATGTGACGAAATAATAGATTTAGAACAGTATAGAAAAGTAGCATCTATGTGATATCCAAAAGATAAAATTAAAAGCCAATCAATGGGAAAt                                                                                                                                      <  1:182723/141‑1 (MQ=255)     gAAAATAAAGTGCTGATTTTAGCAACACATGATATGGCTATTGCAAATCAATGTGACGAAATAATAGATTTAGAACAGTATAGAAAAGTAGCATCTATGTGATATCCAAAAGATAAAATTAAAAGCCAATCAATGGGAAAt                                                                                                                                      >  1:307911/1‑141 (MQ=255)           aaaGTGCTGATTTTAGCAACACATGATATGGCTATTGCAAATCAATGTGACGAAATAATAGATTTAGAACAGTATAGAAAAGTAGCATCTATGTGATATCCAAAAGATAAAATTAAAAGCCAATCAATGGGAAATGTTGAc                                                                                                                                >  2:222483/1‑141 (MQ=255)                      tttAGCAACACATGATATGGCTATTGCAAATCAATGTGACGAAATAATAGATTTAGAACAGTATAGAAAAGTAGCATCTATGTGATATCCAAAAGATAAAATTAAAAGCCAATCAATGGGAAATGTTGACTTCAACACTcc                                                                                                                     >  1:262261/1‑141 (MQ=255)                          gCAACACATGATATGGCTATTGCAAATCAATGTGAAGAAATAATAGATTTAGAAAAGTATAGAAAAGTAGCATCTATGTGATATCCAAAAGATAAAATTAAAAGCCAATCAAACGG‑AGTGTTGAAGTCAacatttcccatt                                                                                                                <  2:233131/141‑10 (MQ=25)                            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)                                                                                                                                         |                                                                                                                                             CGATGAAAATAAAGTGCTGATTTTAGCAACACATGATATGGCTATTGCAAATCAATGTGACGAAATAATAGATTTAGAACAGTATAGAAAAGTAGCATCTATGTGATATCCAAAAGATAAAATTAAAAGCCAATCAATGGGAAATGTTGACTTCAACACTCCGTTTGATTGGCTTTTATACTGTGTTACTAAGTTATGAAAGTAACAACGGCAAACTGAAAAAAAGCAATATAATAATATTTAATACGATTAGTAATAAATGTAATTGATTTTTCGT  >  CP000730/1040234‑1040510

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.