New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	USA300TCH1516_ALE	1442900 =	NA (NA)	4 (0.050)	4/268	8.6	NA	intergenic (+133/+135)	USA300HOU_RS07165/USA300TCH1516_01342	TelA‑like protein/hypothetical protein
	?	USA300TCH1516_ALE	1442915 =	NA (NA)					intergenic (+148/+120)	USA300HOU_RS07165/USA300TCH1516_01342	TelA‑like protein/hypothetical protein
Rejected: Coverage evenness skew score above cutoff.

AATCATAAATTACGAATTAGATATAACAAAAAAGAGCTTGGGACATTAAGTTCCTTAAAGTTCTTAGGCAATGTAAAAAAGCTGATTTCTATTATTTATTTGATAGAAATCAGCTTTTTTGATATGTATTTTATAATGTACAGCTCGTTGAGCTGCTATTTTCCTTATATTAAGTGCCATTAATACAAAACCTAGCTCTCGTTTAACTTTATTTATTCCTCGAACTGACATT  >  USA300TCH1516_ALE/1442760‑1442991                                                                                                                                             |                                                                                            aaTCATAAATTACGAATTAGATATAACAAAAAAGAGCTTGGGACATTAAGTTCCTTAAAGTTCTTAGGCAATGTAAACACGCAGGCTGGGAAATTGTATTTGATAGAAATCGGCTTTTTTGATATGTATTTTATAATGTAc                                                                                             >  1:26622/1‑141 (MQ=25)    cATAAATTACGAATTAGATATAACAAAAAAGAGCTTGGGACATTAAGTTCCTTAAAGTTCTTAGGCAATGTAAAAAAGCTGATTTCTATTATTTATTTGATAGAAATCAGCTTTTTTGATATGTATTTTATAATGTACAGc                                                                                          <  1:667601/141‑1 (MQ=255)      tAAATTACGAATTAGATATAACAAAAAAGAGCTTGGGACATTAACTTGTCAAGACCGCCTTGGCCAAATGGGACAACTGATTCCTAGTATTTATTTCAGAGGAATCAGCGTGATTGATATGTATTTTATAATGGACAGCTc                                                                                        >  1:216614/1‑141 (MQ=12)       aaaTTACGAATTAGATATAACAAAAAAGAGCTTGGGACATTAAGTTCCTTAAAGTTCTTAGGCAATGTAAAAAAGCTGATTTCTATTATTTATTTGATAGAAATCAGCTTTTTTGATATGTATTTTATAATGTACAGCTCg                                                                                       <  2:1838/141‑1 (MQ=255)        aaTTACGAATTAGATATAACAAAAAAGAGCTTGGGACATTAAGTTCCTTAAAGTTCTTAGGCAATGTAAAAAAGCTGATTTCTATTATTTATTTGATAGAAATCAGCTTTTTTGATATGTATTTTATAATGTACAGCTCGt                                                                                      >  1:604378/1‑141 (MQ=255)          ttACGAATTAGATATAACAAAAAAGAGCTTGGGACATTAAGTTCCTTAAAGTTCTTAGGCAATGTAAAAAAGCTGATTTCTATTATTTATTTGATAGAAATCAGCTTTTTTGATATGTATTTTATAATGTACAGCTCGTTg                                                                                    >  1:100367/1‑141 (MQ=255)          ttACGAATTAGATATAACAAAAAAGAGCTTGGGACATTAAGTTCCTTAAAGTTCTTAGGCAATGTAAAAAAGCTGATTTCTATTATTTATTTGATAGAAATCAGCTTTTTTGATATGTATTTTATAATGTACAGCTCGTTg                                                                                    >  1:761463/1‑141 (MQ=255)              gAATTAGATATAACAAAAAAGAGCTTGGGACATTAAGTTCCTTAAAGTTCTTAGGCAATGTAAACAAGCTGATTTCTCTTATTTATTTGATAGAAATCAGCTTTTTTGATATGTATTTTATAATGTACAGCTCGTTGAgct                                                                                >  2:634218/1‑141 (MQ=255)              gAATTAGATATAACAAAAAAGAGCTTGGGACATTAAGTTCCTTAAAGTTCTTAGGCAATGTAAAAAAGCTGATTTCTATTATTTATTTGCTAGAAATCAGCTTTTTTGATATGTATTTTATAATGTACAGCTCGTTGAgct                                                                                >  1:625540/1‑141 (MQ=255)              gAATTAGATATAACAAAAAAGAGCTTGGGACATTAAGTTCCTTAAAGTTCTTAGGCAATGTAAAAAAGCTGATTTCTATTATTTATTTGATAGAAATCAGCTTTTTTGATATGTATTTTATAATGTACAGCTCGTTGAgct                                                                                <  2:123251/141‑1 (MQ=255)              gAATTAGATATAACAAAAAAGAGCTTGGGACATTAAGTTCCTTAAAGTTCTTAGGCAATGTAAAAAAGCTGATTTCTATTATTTATTTGATAGAAATCAGCTTTTTTGATATGTATTTTATAATGTACAGCTCGTTGAgct                                                                                >  2:758346/1‑141 (MQ=255)                 ttAGATATAACAAGAAAGAGCTTGGGACATTAAGTTCCTTAAAGTGCTTAGGCAATGTAAAAAAGCTGATTTCTATTATTTATTTGATAGAAATCAGCTTGTTTGATATGTATTTTATAATGTACAGCTCGTTGAgctgct                                                                             <  1:495238/141‑1 (MQ=255)                   aGATATAACAAAAAAGAGCTTGGGACATTAAGTTCCTTAAAGTTCTTAGGCAATGTAAAAAAGCTGATTTCTATTATTTATTTGATAGAAATCAGCTTTTTTGATATGTATTTTATAATGTACAGCTCGTTGAGCTGCTAt                                                                           <  2:553417/141‑1 (MQ=255)                       ataACAAAAAAGAGCTTGGGACATTAAGTTCCTTAAAGTTCTTAGGCAATGTAAAAAAGCTGATTTCTATTATTTATTTGATAGAAATCAGCTTTTTTGATATGTATTTTATAATGTACAGCTCGTTGAGCTGCTATTTTc                                                                       >  2:533582/1‑141 (MQ=255)                            aaaaaaGAGCTTGGGACATTAAGTTCCTTAAAGTTCTTAGGCAATGTAAAAAAGCTGATTTCTATTATTTATTTGATAGAAATCAGCTTTTTTGATATGTATTTTATAATGTACAGCTCGTTGAGCTGCTATTTTCCTtat                                                                  <  1:49270/141‑1 (MQ=255)                               aaaGAGCTTGGGACATTAAGTTCCTTAAAGTTCTTAGGCAATGTAAAAAAGCTGATTTCTATTATTTATTTGATAGAAATCAGCTTTTTTGATATGTATTTTATAATGTACAGCTCGTTGAGCTGCTATTTTCCTTATAtt                                                               <  2:496841/141‑1 (MQ=255)                                aaGAGCTTGGGACATTAAGTTCCTTAAAGTTCTTAGGCAATGTAAAAAAGCTGATTTCTATTATTTATTTGATAGAAATCAGCTTTTTTGATATGTATTTTATAATGTACAGCTCGTTGAGCTGCTATTTTCCTTATATTa                                                              <  2:604378/141‑1 (MQ=255)                                 agagCTTGGGACATTAAGTTCCTTAAAGTTCTTAGGCAATGTAAAAAAGCTGATTTCTATTATTTATTTGATAGAAATCAGCTTTTTTGATATGTATTTTATAATGTACAGCTCGTTGAGCTGCTATTTTCCTTATATTaa                                                             >  1:57074/1‑141 (MQ=255)                                 agagCTTGGGACATTAAGTTCCTTAAAGTTCTTAGGCAATGTAAAAAAGCTGATTTCTATTATTTATTTGATAGAAATCAGCTTTTTTGATATGTATTTTATAATGTACAGCTCGTTGAGCTGCTATTTTCCTTATATTaa                                                             >  1:87085/1‑141 (MQ=255)                                  gagCTTGGGACATTAAGTTCCTTAAAGTTCTTAGGCAATGTAAAAAAGCTGATTTCTATTATTTATTTGATAGAAATCAGCTTTTTTGATATGTATTTTATAATGTACAGCTCGTTGAGCTGCTATTTTCCTTATATTaat                                                            >  2:37107/1‑140 (MQ=255)                                       tGGGACATTAAGTTCCTTAAAGTTCTTAGGCAATGTAAAAAAGCTGATTTCTATTATTTATTTGATAGAAATCAGCTTTTTTGATATGTATTTTATAATGTACAGCTCGTTGAGCTGCTATTTTCCTTATATTAAGTGCCa                                                       <  1:548237/141‑1 (MQ=255)                                                                       aTGTAAAAAAGCTGATTTCTATTATTTATTTGATAGAAATCAGCTTTTTTGATATGTATTTTATAATGTACAGCTCGTTGAGCTGCTATTTTCCTTATATTAAGTGCCATTAATACAAAACCTAGCTCTCGTTTAACttta                       <  1:924546/141‑1 (MQ=32)                                                                            aaaaaGCTGATTTCTATTATTTATTTGATAGAAATCAGCTTTTTTGATATGTATTTTATAATGTACAGCTCGTTGAGCTGCTATTTTCCTTATATTAAGTGCCATTAATACAAAACCTAGCTCTCGTTTAACTttatttat                  >  1:881623/1‑141 (MQ=32)                                                                            aaaaaGCTGATTTCTATTATTTATTTGATAGAAATCAGCTTTTTTGATATGTATTTTATAATGTACAGCTCGTTGAGCTGCTATTTTCCTTATATTAAGTGCCATTAATACAAAACCTAGCTCTCGTTTAACTttatttat                  >  1:526473/1‑141 (MQ=32)                                                                            aaaaaGCTGATTTCTATTATTTATTTGATAGAAATCAGCTTTTTTGATATGTATTTTATAATGTACAGCTCGTTGAGCTGCTATTTTCCTTATATCAAGTGCCATTAATACAAAACCTAGCTCTCGTTTAACTttatttat                  >  2:901036/1‑141 (MQ=17)                                                                            aaaaaGCTGATTTCTATTATTTATTTGATAGAAATCAGCTTGTTTGATATGTATTTTATAATGTACAGCTCGTTGAGCTGCTAGTTTCCTTGTATTAAGTGCCATTAATACAAAACCTAGCTCTCGTTTAACTttatttat                  >  2:183334/1‑141 (MQ=12)                                                                             aaaaGCTGATTTCTATTATTTATTTGATAGAAATCAGCTTTTTTGATATGTATTTTTTACTGTAAAGCTCGTTGTGCTTCTGTTTTCGTTACATTTAGTGCCATTTGTACAAAACCTATCTCTCGTTTAACTTtatttatt                 >  2:216777/1‑141 (MQ=11)                                                                             aaaaGCTGATTTCTATTATTTATTTGATAGAAATCAGCTTTTTTGATATGTATTTTATAATGTACAGCTCGTTGAGCTGCTATTTTCCTTATATTACGTGCCATTAATACAAAACCTTGGTCTCGTTTAACTTtatttttt                 >  2:821943/1‑141 (MQ=255)                                                                               aaGCTGATTTCTATTATTTATTTGATAGAAATCAGCTTTTTTGATATGTATTTTATAATGTACAGCTCGTTGAGCTGCTATTTTCCTTATATTAAGTGCCATTAATACAAAACCTAGCTCTCGTTTAACTTTATTTATTcc               <  2:830711/141‑1 (MQ=32)                                                                                  cTGATTTCTATTATTTATTTGATAGAAATCAGCTTTTATGATATGTATTTTATAATGTACAGCTCGTTGAGCTGCTATTTTCCTTATATTAAGTGCCATTAATACAAAACCTAGCTCTCGTTTAACTTTATTTATTCCTCg            >  2:372517/1‑141 (MQ=17)                                                                                   tGATTTCTATTATTTATTTGATAGAAATCAGCTTTTTTGATATGTATTTTATAATGTACAGCTCGTTGAGCTGCTATTTTCCTTATATTAAGTGCCATTAATACAAAACCTAGCTCTCGTTCAACTTTATTTATTCCTCGa           <  1:600136/141‑1 (MQ=17)                                                                                         ttattatTTATTTGATAGAAATCAGCTTTTTTGATATGTATTTTATAATGTACAGCTCGTTGAGCTGCTATTTTCCTTATATTAAGTGCCATTAATACAAAACCTAGCTCTCGTTTAACTTTATTTATTCCTCGAACTGAc     <  2:126476/140‑1 (MQ=17)                                                                                         cTATTATTTATTTGATAGAAATCAGCTTTTTTGATATGTATTTTATAATGTACAGCTCGTTGAGCTGCTATTTTCCTTATATTAAGTGCCATTAATACAAAACCTAGCTCTCGTTTAACTTTATTTATTCCTCGAACTGAc     >  2:334224/1‑141 (MQ=32)                                                                                         cTATTATTTATTTGATAGAAATCAGCTTTTTTGATACTGATTTTATAATGTACAGCTCGTTGAGCTGCTATTTTCCTTAGATTAAGTGCCATTAATACAAAACCTAGCTCTCGTTTAACTTTATTTATTCCTCGAACTGAc     <  1:353194/141‑1 (MQ=255)                                                                                            ttatttatTTGATAGAAATCAGCTTTTTTGATATGTATTTTATAATGTACAGCTCGTTGAGCTGCTATTTTCCTTATATTAAGTGCCATTAATACAAAACCTAGCTCTCGTTTAACTTTATTTATTCCTCGAACTGACAtt  <  1:533582/141‑1 (MQ=32)                                                                                                                                             |                                                                                            AATCATAAATTACGAATTAGATATAACAAAAAAGAGCTTGGGACATTAAGTTCCTTAAAGTTCTTAGGCAATGTAAAAAAGCTGATTTCTATTATTTATTTGATAGAAATCAGCTTTTTTGATATGTATTTTATAATGTACAGCTCGTTGAGCTGCTATTTTCCTTATATTAAGTGCCATTAATACAAAACCTAGCTCTCGTTTAACTTTATTTATTCCTCGAACTGACATT  >  USA300TCH1516_ALE/1442760‑1442991

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ 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.