New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP000730	= 2665491	46 (1.220)	4 (0.120)	4/256	5.3	8.5%	coding (43/99 nt)	USA300HOU_2520	hypothetical protein
	?	CP000730	= 2665513	44 (1.270)					coding (21/99 nt)	USA300HOU_2520	hypothetical protein
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

ATCACTCCTTTTAAGTTATTTTAGATATACGGGGGCGCTTTTGCAATCACTATTTTGATTAGTATGCATTTTCCATAAATCTTTCAACTTCTTCAGAGATAATTAAGAAGCATCTATCTGGTACTAATGATCCAGACAGATGCTTCTTTTTTATCAATATTTTATTGTTATCTCATTAATTATTTTTAACCATATCTTCAGCTGTGCCAAAGATTTTACGTTTAATTGCTTCGCCAGTTGGTGTGCCTGCTAGTCCACCCAATCCAGTTTCACGT  >  CP000730/2665377‑2665651                                                                                                                                         |                                                                                                                                           atcaCTCCTTTTAAGTTATTTTAGATATACGGGGGCGCTTTTGCAATCACTATTTTGATTAGTATGCATTTTCCATAAATCTTTCAACTTCTTCAGAGATAATTAAGAAGCATCTATCTGGTACTAATGATCCAGACAGAt                                                                                                                                        <  2:226706/141‑1 (MQ=255)  ccaCTCCTTTTAAGTTATTTTAGATATACGGGGGCGCTTTTGCAATCACCATTTTGATTAGTATGCATTTTCCATAAATCTTTCAACTTCTTCAGCGATAATTAAGAAGCATCTATCTGGCACTAATGATCcagacagagg                                                                                                                                       >  2:215581/2‑139 (MQ=255)    aCTTCTTGTAGGTTATTTTAGCTATAGGGGAGCGTTTTTGTAATTACTATTTTGCTTAGTGTGCCTTTTCCATAACACTTTCAACTTCTACAGAGATAATTAAGAAGCATCTATCTGGTACTAATGATCCAGCCAGATGct                                                                                                                                     <  2:79421/141‑1 (MQ=255)      tCCTTTTAAGTTATTTTAGATATACGGGGGCGCTTTTGCAATCACTATTTTGATTAGTATGCATTTTCCATAAATCTTTCAACTTCTTCAGAGATAATTAAGAAGCATCTATCTGGTACTAATGATCCAGACAGATGcttc                                                                                                                                   <  1:363724/141‑1 (MQ=255)       ccTTTTAAGTTATTTTAGATATACGGGGGCGCTTTTGCAATCACTATTTTGATTAGTATGCATTTTCCATAAATCTTTCAACTTCTTCAGAGATAATTAAGAAGCATCTATCTGGTACTAATGATCCAGACAGATGcttct                                                                                                                                  <  2:106667/141‑1 (MQ=255)           ttAAGTTATTTTAGATATACGGGGGCGCTTTTGCAATCACTATTTTGATTAGTATGCATTTTCCATAAATCTTTCAACTTCTTCAGAGATAATTAAGAAGCATCTATCTGGTACTAATGATCCAGACAGATGCTTCttttt                                                                                                                              >  2:137954/1‑141 (MQ=255)           ttAAGTTATTTTAGATATACGGGGGCGCTTTTGCAATCACTATTTTGATTAGTATGCATTTTCCATAAATCTTTCAACTTCTTCAGAGATAATTAAGAAGCATCTATCTGGTACTAATGATCCAGACAGATGCTTCttttt                                                                                                                              >  1:229131/1‑141 (MQ=255)             aaGTTATTTTAGATATACGGGGGCGCTTTTGCAATCACTATTTTGATTAGTATGCATTTTCCATAAATCTTTCAACTTCTTCAGAGATAATTAAGAAGCATCTATCTGGTACTAATGATCCAGACAGATGCTTCttttttt                                                                                                                            >  2:306281/1‑140 (MQ=255)              aGTTATTTTAGATATACGGGGGCGCTTTTGCAATCACTATTTTGATTAGTATGCATTTTCCATAAATCTTTCAACTTCTTCAGAGATAATTAAGAAGCATCTATCTGGTACTAATGATCCAGACAGATGCTTCTTTTTTAt                                                                                                                           >  2:160190/1‑141 (MQ=255)               gTTATTTTAGATATACGGGGGCGCTTTTGCAATCACTATTTTGATTAGTATGCATTTTCCATAAATCTTTCAACTTCTTCAGAGATAATTAAGAAGCATCTATCTGGTACTAATGATCCAGACAGATGCTTCTTTTTTATc                                                                                                                          >  1:399904/1‑141 (MQ=255)               gTTATTTTAGATATACGGGGGCGCTTTTGCAATCACTATTTTGATTAGTATGCATTTTCCATAAATCTTTCAACTTCTTCAGAGATAATTAAGAAGCATCTATCTGGTACTAATGATCCAGACAGATGCTTCTTTTTTATc                                                                                                                          >  2:251555/1‑141 (MQ=255)                  aTTTTAGATATACGGGGGCGCTTTTGCAATCACTATTTTGATTAGTATGCATTTTCCATAAATCTTTCAACTTCTTCAGAGATAATTAAGAAGCATCTATATGGTACTAATTATCTAGACAGATGCTTCTTTTTTATCAat                                                                                                                       >  2:217703/1‑141 (MQ=255)                    tttAGATATACGGGGGCGCTTTTGCAATCGCTATTTTGATTAGTATGCATTTTCCATAAATCTTTCAACTTCTTCAGAGGTAATTAAGAAGCATCTATCTGGTACTAATGATCCAGACAGATGCTTCTTTTTTATCAatat                                                                                                                     <  2:389347/141‑1 (MQ=255)                      tggATATACGGGGGCGCTTTTGTAATCATTATTTTGATTAGTATGCCTATTCCATAAATCTTTCAACTTCTTCAGAGCTAATTAGGCGTCATCTATCTGGTCCTGATCCTCCAGACAGATGCTGCTTTTTAATAGATAttt                                                                                                                   <  2:79847/139‑1 (MQ=255)                       agctataCGTGGGCGCTTTTGCAATCACTATTTTGATTAGTATGCATTTTCCATAAATCTTTCAACTTCTTCAGAGATAATTAAGAAGCATCTATCTGGTACTAATGATCCAGACAGATGCTTCTTTTTTATCAATAtttt                                                                                                                  >  2:172201/4‑141 (MQ=255)                         atatACGGGGGCGCTTTTGCAATCACTATTTTGATTAGTATGCATTTTCCATAAATCTTTCAACTTCTTCAGAGATAATTAAGAAGCATCTATCTGGTACTAATGATCCAGACAGATGCTTCTTTTTTATCAATATTTTAt                                                                                                                >  1:266667/1‑141 (MQ=255)                         atatACGGGGGCGCTTTTGCAATCACTATTTTGATTAGTATGCATTTTCCATAAATCTTTCAACTTCTTCAGAGATAATTAAGAAGCATCTATCTGGTACTAATGATCCAGACAGATGCTTCTTTTTTATCAATATTTTAt                                                                                                                >  1:384280/1‑141 (MQ=255)                                    cgcTTTTGCAATCACTATTTTGATTAGTATGCATTTTCCATAAATCTTTCAACTTCTTCAGAGATAATTAAGAAGCATCTATCTGGTACTAATGATCCAGACAGATGCTTCTTTTTTATCAATATTTTATTGTTATCTCat                                                                                                     >  1:43159/1‑141 (MQ=255)                                                      tttGATTAGTATGCATTTTCCATAAATCTTTCAACTTCTTCAGAGATAATTAAGAAGCATCTATCTGGTACTAATGATCCAGACAGATGCTTCTTTTTTATCAATATTTTATTGTTATCTCATTAATTATTTTTAACCata                                                                                   >  1:23361/1‑141 (MQ=255)                                                      tttGATTAGTATGCATTTTCCATAAATCTTTCAACTTCTTCAGAGATAATTAAGAAGCATCTATCTGGTACTAATGATCCAGACAGATGCTTCTTTTTTATCAATATTTTATTGTTATCTCATTAATTATTTTTAACCata                                                                                   >  2:354334/1‑141 (MQ=255)                                                       ttGATTAGTATGCATTTTCCATAAATCTTTCAACTTCTTCAGAGATAATTAAGAAGCATCTATCTGTTACTAATGATCCATACAGATGCTTCTTTTTTATCAATATTGTATTGTGATCTCATTAATTATTTTTAACCatat                                                                                  >  2:317778/1‑141 (MQ=255)                                                       ttGATTAGTATGCATTTTCCATAAATCTTTCAACTTCTTCAGAGATAATTAAGAAGCATCTATCTGGTACTAATGATCCAGACAGATGCTTCTTTTTTATCAATATTCTATTGTTATCTCATTAATTATTTTTAACCatat                                                                                  >  2:317763/1‑141 (MQ=255)                                                              gTATGCATTTTCCATAAATCTTTCAACTTCTTCAGAGATAATTAAGAAGCATCTATCTGGTACTAATGATCCAGACAGATGCTTCTTTTTTATCAATATTTTATTGTTATCTCATTAATTATTTTTAACCATATCTTCAGc                                                                           <  2:322127/141‑1 (MQ=255)                                                                   cATTTTCCATAAATCTTTCAACTTCTTCAGAGATAATTAAGAAGCATCTATCTGGTACTAATGATCCAGACAGATGCTTCTTTTTTATCAATATTTTATTGTTATCTCATTAATTATTTTTAACCATATCTTCAGCTGTGc                                                                      >  1:206411/1‑141 (MQ=255)                                                                    aTTTTCCATAAATCTTTCAACTTCTTCAGAGATAATTAAGAAGCATCTATCTGGTACTAATGATCCAGACAGATGCTTCTTTTTTATCAATATTTTATTGTTATCTCATTAATTATTTTTAACCATATCTTCAGCTGTGcc                                                                     <  2:258993/141‑1 (MQ=255)                                                                     ttttCCATAAATCTTTCAACTTCTTCAGAGATAATTAAGAAGCATCTATCTGGTACTAATGATCCAGACAGATGCTTCTTTTTTATCAATATTTTATTGTTATCTCATTAATTATTTTTAACCATATCTTCAGCTGTGCCa                                                                    <  2:198033/141‑1 (MQ=255)                                                                     ttttCCATAAATCTTTCAACTTCTTCAGAGATAATTAAGAAGCATCTATCTGGTACTAATGATCCAGACAGATGCTTCTTTTTTATCAATATTTTATTGTTATCTCATTAATTATTTTTAACCATATCTTCAGCTGTGCCa                                                                    <  1:49601/141‑1 (MQ=255)                                                                             aaaTCTTTCAACTTCTTCAGAGATAATTAAGAAGCATCTATCTGGTACTAATGATCCAGACAGATGCTTCTTTTTTATCAATATTTTATTGTTATCTCATTAATTATTTTTAACCATATCTTCAGCTGTGCCAAAGAtttt                                                            >  2:196887/1‑141 (MQ=255)                                                                                   ttCAACTTCTTCAGAGATAATTAAGAAGCATCTATCTGGTACTAATGATCCAGACAGATGCTTCTTTTTTATCAATATTTTATTGTTATCTCATTAATTATTTTTAACCATATCTTCAGCTGTGCCAAAGATTTTACGttt                                                      <  1:108728/141‑1 (MQ=255)                                                                                    tCAACTTCTTCAGAGATAATTAAGAAGCATCTATCTGGTACTAATGATCCAGACAGATGCTTCTTTTTTATCAATATTTTATTGTTATCTCATTAATTATTTTTAACCATATCTTCAGCTGTGCCAAAGATTTTACGTTTa                                                     >  2:141154/1‑141 (MQ=255)                                                                                    tCAACTTCTTCAGAGATAATTAAGAAGCATCTATCTGGTACTAATGATCCAGACAGATGCTTCTTTTTTATCAATATTTTATTGTTATCTCATTAATTATTTTTAACCATATCTTCAGCTGTGCCAAAGATTTTACGTTTa                                                     >  1:122774/1‑141 (MQ=255)                                                                                          tcttcAGAGATAATTAAGAAGCATCTATCTGGTACTAATGATCCAGACAGATGCTTCTTTTTTATCAATATTTTATTGTTATCTCATTAATTATTTTTAACCATATCTTCAGCTGTGCCAAAGATTTTACGTTTAATTGCt                                               >  2:332457/1‑141 (MQ=255)                                                                                            ttcAGAGATAATTAAGAAGCATCTATCTGGTACTAATGATCCAGACAGATGCTTCTTTTTTATCAATATTTTATTGTTATCTCATTAATTATTTTTAACCATATCTTCAGCTGTGCCAAAGATTTTACGTTTAATTGCTTc                                             >  1:81928/1‑141 (MQ=255)                                                                                              cAGAGATAATTAAGAAGCATCTATCTGGTACTAATGATCCAGACAGATGCTTCTTTTTTATCAATATTTTATTGTTATCTCATTAATTATTTTTAACCATATCTTCAGCTGTGCCAAAGATTTTACGTTTAATTGCTTCGc                                           >  1:225202/1‑141 (MQ=255)                                                                                                       ttAAGAAGCATCTATCTGGTACTAATGATCCAGACAGATGCTTCTTTTTTATCAATATTTTATTGTTATCTCATTAATTATTTTTAACCATATCTTCAGCTGTGCCAAAGATTTTACGTTTAATTGCTTCGCCAGTTGgtg                                  <  2:547/141‑1 (MQ=255)                                                                                                       ttAAGAAGCATCTATCTGGTACTAATGATCCAGACAGATGCTTCTTTTTTATCAATATTTTATTGTTATCTCATTAATTATTTTTAACCATATCTTCAGCTGTGCCAAAGATTTTACGTTTAATTGCTTCGCCAGTTGgtg                                  <  2:18052/141‑1 (MQ=255)                                                                                                       ttAAGAAGCATCTATCTGGTACTAATGATCCAGACAGATGCTTCTTTTTTATCAATATTTTATTGTTATCTCATTAATTATTTTTAACCATATCTTCAGCTGTGCCAAAGATTTTACGTTTAATTGCTTCGCCAGTTGgtg                                  <  1:123750/141‑1 (MQ=255)                                                                                                       ttAAGAAGCATCTATCTGGTACTAATGATCCAGACAGATGCTTCTTTTTTATCAATATTTTATTGTTATCTCATTAATTATTTTTAACCATATCTTCAGCTGTGCCAAAGATTTTACGTTTAATTGCTTCGCCAGTTGgtg                                  <  1:239248/141‑1 (MQ=255)                                                                                                              gCATCTATCTGGTACTAATGATCCAGACAGATGCTTCTTTTTTATCAATATTTTATTGTTATCTCATTAATTATTTTTAACCATATCTTCAGCTGTGCCAAAGATTTTACGTTTAATCGCTTCGCCAGTTGGTGTGCCTGc                           <  1:172201/141‑1 (MQ=255)                                                                                                                atctatctGGTACTAATGATCCAGACAGATGCTTCTTTTTTATCAATATTTTATTGTTATCTCATTAATTATTTTTAACCATATCTTCAGCTGTGCCAAAGATTTTACGTTTAATTGCTTCGCCAGTTGGTGTGCCTGCTa                         >  1:14395/1‑141 (MQ=255)                                                                                                                 tctatctGGTACTAATGATCCAGACAGATGCTTCTTTTTTATCAATATTTTATTGTTATCTCATTAATTATTTTTAACCATATCTTCAGCTGTGCCAAAGATTTTACGTTTAATTGCTTCGCCAGTTGGTGTGCCTGCTAg                        >  1:123768/1‑141 (MQ=255)                                                                                                                 tctatctGGTACTAATGATCCAGACAGATGCTTCTTTTTTATCAATATTTTATTGTTATCTCATTAATTATTTTTAACCATATCTTCAGCTGTGCCAAAGATTTTACGTTTAATTGCTTCGCCAGTTGGTGTGCCTGCTAg                        >  1:123767/1‑141 (MQ=255)                                                                                                                  ctatctGGTACTAATGATCCAGACAGATGCTTCTTTTTTATCAATATTTTATTGTTATCTCATTAATTATTTTTAACCATATCTTCAGCTGTGCCAAAGATTTTACGTTTAATTGCTTCGCCAGTTGGTGTGCCTGCTAGt                       <  1:184615/141‑1 (MQ=255)                                                                                                                         gTACTAATGATCCAGACAGATGCTTCTTTTTTATCAATATTTTATTGTTATCTCATTAATTATTTTTAACCATATCTTCAGCTGTGCCAAAGATTTTACGTTTAATTGCTTCGCCAGTTGGTGTGCCTGCTAGTCCACCCa                >  2:365278/1‑141 (MQ=255)                                                                                                                          tACTAATGATCCAGACAGATGCTTCTTTTTTATCAATATTTTATTGTTATCTCATTAATTATTTTTAACCATATCTTCAGCTGTGCCAAAGATTTTACGTTTAATTGCTTCGCCAGTTGGTGTGCCTGCTAGTCCACCCaa               >  1:68003/1‑141 (MQ=255)                                                                                                                            ttAATGAGCCATACAGATGCTTCTTTTTTATCAATATTTTATTGTTATCTCATTAATTATTTTTAACCATATCTTCAGCTGTGCCAACGATTTTACGTTTAATTGCTTCGCCAGTTGGTGTGCCTGCTAGTCCACCCAATc             <  2:384280/140‑1 (MQ=255)                                                                                                                                 gATCCAGACAGATGCTTCTTTTTTATCAATATTTTATTGTTATCTCATTAATTATTTTTAACCATATCTTCAGCTGTGCCAAAGATTTTACGTTTAATTGCTTCGCCAGTTGGTGTGCCTGCTAGTCCACCCAATCCAGtt        <  1:251555/141‑1 (MQ=255)                                                                                                                                   tCCAGACAGATGCTTCATTTTTATCAATATTTTATTGTTATCTCATTAATTATTTTTAACCATTTCTTCAGCTGTGCCAAAGACTTTACGTTTAATTGCTTCGCCAGTTGGTGTGCCTGCTAGTCCACCAAATCCAGTTTc      <  2:401833/141‑1 (MQ=255)                                                                                                                                       gacagaTGCTTCTTTTTTATCAATATTTTATTGTTATCTCATTAATTATTTTTAACCATATCTTCAGCTGTGCCAAAGATTTTACGTTTAATTGCTTCGCCAGTTGGTGTGCCTGCTAGTCCACCCAATCCAGTTTCACGt  <  2:173897/141‑1 (MQ=255)                                                                                                                                         |                                                                                                                                           ATCACTCCTTTTAAGTTATTTTAGATATACGGGGGCGCTTTTGCAATCACTATTTTGATTAGTATGCATTTTCCATAAATCTTTCAACTTCTTCAGAGATAATTAAGAAGCATCTATCTGGTACTAATGATCCAGACAGATGCTTCTTTTTTATCAATATTTTATTGTTATCTCATTAATTATTTTTAACCATATCTTCAGCTGTGCCAAAGATTTTACGTTTAATTGCTTCGCCAGTTGGTGTGCCTGCTAGTCCACCCAATCCAGTTTCACGT  >  CP000730/2665377‑2665651

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ 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.