New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	USA300TCH1516_ALE	221933 =	35 (1.410)	3 (0.130)	3/266	3.0	9.2%	coding (1341/2046 nt)	ptsG_1	PTS system glucose‑specific EIICBA component
	?	USA300TCH1516_ALE	222024 =	26 (1.100)					coding (1250/2046 nt)	ptsG_1	PTS system glucose‑specific EIICBA component
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

ATTTGTCGTTAACTTCAACACGTAGACGTGTGATACAAGCGTCTAAATGTTTAATGTTTGCTTTGCCACCCATAGCTTCTAATACTGCATATGGTAATTCAGTTGCTGAAGCAGTAGCCGCTTGTGATTGTTTATCTTCACGACCTGGTGTTTTGTATTTTAATTTTACAATTAAGAATCGGAATACGAAGTAGTAAATAACTGCGTATACAAGACCTACAGGAATGACTAACCACCATTGTGTCTTATTAGGTAGTA  >  USA300TCH1516_ALE/221899‑222156                                                                                                                              |                                                                                                                                     aTTTGGCGTTAACTTCCACACGTAGACGTGTGATACAAGTGTCTAAATGTTTAATGTTTGCTTTGCCATCCATCGCTTCTACTACTGCATATGGTAATTCAGTTCCTGAAGCAGTAGCCGCTTGTGATTGTTTATCTTCAc                                                                                                                       <  2:27174/141‑1 (MQ=255)   ttGTCGTTAACTTCAACACGTAGACGTGTGATACAAGCGTCTAAATGTTTAATGTTTGCTTTGCCACCCATAGCTTCTAATACTGCATATGGTAATTCAGTTGCTGAAGCAGTAGCCGCTTGTGATTGTTTATCTTCACGa                                                                                                                     <  2:109977/141‑1 (MQ=255)     gTCGTTAACTTCAACACGTAGACGTGTGATACAAGCGTTTAAATGTTTACTGTTTGCTTTGCCACCCATAGCTTCTAATACTGCATATGGTAATTCAGTTGCTGAAGCAGTAGCCGCTTGTGATTGTTTATCTTCACGAcc                                                                                                                   <  2:91790/141‑1 (MQ=255)         ttAACTTCAACACGTAGACGTGTGATACAAGCGTCTAAATGTTTAATGTTTGCTTTGCCACCCATAGCTTCTAATACTGCATATGGTAATTCAGTTGCTGAAGCAGTAGCCGCTTGTGATTGTTTATCTTCACGACCTGgt                                                                                                               <  1:279164/141‑1 (MQ=255)          tAACTTCAACACGTAGACGTGTGATACAAGCGTCTAAATGTTTAATGTTTGCTTTGCCACACATAGGTTCTAATACTGCATATGGTAATTCTGTTGCTGAAGCAGTAGCCGCTTGTGATTGTTTATCTTCACGACCTGgtg                                                                                                              <  2:47591/141‑1 (MQ=255)                    acGGAGACGTGTGATACAAGCGTCTAAATGTTTAATGTTTGCTTTGCCACCCATAGCTTCTAATACTGCATATGGTAATTCAGTTGCTGAAGCAGTAGCCGCTTGTGATTGTTTATCTTCACGACCTGGTGTTTTGTattt                                                                                                    <  1:47123/141‑1 (MQ=255)                         gACGTGTGATACAAGCGTCTAAATGTTTAATGTTTGCTTTGCCACCCATAGCTTCTAATACTGCATATGGTAATTCAGTTGCTGAAGCAGTAGCCGCTTGTGATTGTTTATCTTCACGACCTGGTGTTTTGTattttaatt                                                                                               >  2:262232/1‑141 (MQ=255)                           cGTGTGATACAAGCGTCTAAATGTTTAATGTTTGCTTTGCCACCCATAGCTTCTAATACTGCATATGGTAATTCAGTTGCTGAAGCAGTAGCCGCTTGTGATTGTTTATCTTCACGACCTGGTGTTTTGTattttaatttt                                                                                             >  2:282056/1‑141 (MQ=255)                                  tACAAGCGTCTAAATGTTTAATGTTTGCTTTGCCACCCATAGCTTCTAATACTGCATATGGTAATTCAGTTGCTGAAGCAGTAGCCGCTTGTGATTGTTTATCTTCACGACCTGGTGTTTTGTATTTTAATTTTACAATTa                                                                                      >  2:12038/1‑141 (MQ=255)                                           cTAAATGTTTAATGTTTGCTTTGCCACCCATAGCTTCTAATACTGCATATGATAATTAAATTTCTTAATCAGTAGCCGCTTGTGATTGTTTATCTTCACGACCTGGTGTTTTGTATTTTAATTTTACAATTAAGAATCGGa                                                                             <  1:209176/141‑1 (MQ=255)                                                tgtttaatgtttGCTTTGCCACCCATAGCTTCTAATACTGCATATGGTAATTCAGTTGCTGAAGCAGTAGCCGCTTGTGATTGTTTATCTTCACGACCTGGTGTTTTGTATTTTAATTTTACAATTAAGAATCGGAATACg                                                                        >  1:111398/1‑141 (MQ=255)                                                    taatgtttGCTTTGCCACCCATAGCTTCTAATACTGCATATGGTAATTCAGTTGCTGAAGCAGTAGCCGCTTGTGATTGTTTATCTTCACGACCTGGTGTTTTGTATTTTAATTTTACAATTAAGAATCGGAATACGAagt                                                                    <  1:274990/141‑1 (MQ=255)                                                    taatgtttGCTTTGCCACCCATAGCTTCTAATACTGCATATGGTAATTCAGTTGCTGAAGCAGTAGCCGCTTGTGATTGTTTATCTTCACGACCTGGTGTTTTGTATTTTAATTTTACAATTAAGAATCGGAATACGAagt                                                                    >  1:34260/1‑141 (MQ=255)                                                        gtttGCTTTGCCACCCATAGCTTCTAATACTGCATATGGTAATTCAGTTGCTGAAGCAGTAGCCGCTTGTGATTGTTTATCTTCACGACCTGGTGTTTTGTATTTTAATTTTACAATTAAGAATCGGAATACGAAgtagta                                                                <  1:61772/141‑1 (MQ=255)                                                           tgctttgcCACCCCTGGCTACTAATACTGCATATGTGAATTCAGTTGCTGAAGCAGTAGCCGCTTGTGGTTGTGTAACTTCACGACCTGGGGTTTGGTATTTTAATTTTACAATGAAGAATCGGAATACGAAGTAGGAAAt                                                             >  2:49385/1‑141 (MQ=255)                                                           tgctttgcCACCCATAGCTTCTAATACTGCATATGGTAATTCAGTTGCTGAAGCAGTAGCCGCTTGTGATTGTTTATCTTCACGACCTGGTGTTTTGTATTTTAATTTTACAATTAAGAATCGGAATACGAAGTAGTAAAt                                                             >  1:259563/1‑141 (MQ=255)                                                                             ttCTAATACTGCATATGGTAATTCAGTTGCTGAAGCAGTAGCCGCTTGTGATTGTTTATCTTCACGACCTGGTGTTTTGTATTTTAATTTTACAATTAAGAATCGGAATACGAAGTAGTAAATAACTGCGTATACAAGAcc                                           <  1:207233/141‑1 (MQ=255)                                                                                tAATACTGCATATGGTAATTCAGTTGCTGAAGCAGTAGCCGCTTGTGATTGTTTATCTTCACGACCTGGTGTTTTGTATTTTAATTTTACAATTAAGAATCGGAATACGAAGTAGTAAATAACTGCGTATACAAGACCTAc                                        <  2:238245/141‑1 (MQ=255)                                                                                      tGCATATGGTAATTCAGTTGCTGAAGCAGTAGCCGCTTGTGATTGTTTACCCTACGGACCTTGTGTTTTGTACCTTAATTTTACAATTAAGAATCGGAATACGAAGTAGTAAATAACTGCGTATACAAGACCTACAGGAAt                                  <  1:196384/141‑1 (MQ=255)                                                                                                  ttCAGTTGCTGAAGCAGTAGCCGCTTGTGATTGTTTATCTTCACGACCTGGTGTTTTGTATTTTAATTTTACAATTAAGAATCGGAATACGAAGTAGTAAATAACTGCGTATACAAGACCTACAGGAATGACTAAccacca                      <  1:159975/141‑1 (MQ=255)                                                                                                          cTGAAGCAGTAGCCGCTTGTGATTGTTTATCTTCACGACCTGGTGTTTTGTATTTTAATTTTACAATTAAGAATCGGAATACGAAGTAGTAAATAACTGCGTATACAAGACCTACAGGAATGACTAACCACCATTGTGTCt              <  2:259563/141‑1 (MQ=255)                                                                                                          cTGAAGCAGTAGCCGCTTGTGATTGTTTATCTTCACGACCTGCTGTTTTGTATTATAATTTTACAATCAAGAATCGGAATACGAAGTAGTAAATAACTGCGTATACAAGACCTACAGGAATGACTAACCACCATTGTGTCt              <  1:49696/141‑1 (MQ=255)                                                                                                           tGAAGCAGTAGCCGCTTGTGATTGTTTATCTTCACGACCTGGTGTTTTGTATTGTAATTTTACAATTAAGAATCGGAATACGAAGTAGTAAATAACTGCGTATACAAGACCTACAGGAATGACTAACCACCATTGTGTCtt             >  1:271414/1‑141 (MQ=255)                                                                                                            gAAGCAGTAGCCGCTTGTGATTGTTTATCTTCACGACCTGGTGTTTTGTATTTTAATTTTACAATTAAGAATCGGAATACGAAGTAGTAAATAACTGCGTATACAAGACTTACAGGAATGACTAACCACCATTGTGTCtta            >  2:233248/1‑141 (MQ=255)                                                                                                                     gCCGCTTGTGATTGTTTATCTTCACGACCTGGTGTTTTGTATTTTAATTTTACAATTAAGAATCGGAATACAAAATATTAAAGAACTGTGTATACAAGACTTACAGGAATAACTAACAACCATTATGTCttattaaataat   >  2:173535/1‑135 (MQ=255)                                                                                                                      ccGCTTGTGATTGTTTATCTTCACGACCTGGTGTTTTGTATTTTAATTTTACAATTAAGAATCGGAATACGAAGTAGTAAATAACTGCGTATACAAGACCTACAGGAATGACTAACCACCATTGTGTCTTATTAGgtagta  >  1:50726/1‑141 (MQ=255)                                                                                                                              |                                                                                                                                     ATTTGTCGTTAACTTCAACACGTAGACGTGTGATACAAGCGTCTAAATGTTTAATGTTTGCTTTGCCACCCATAGCTTCTAATACTGCATATGGTAATTCAGTTGCTGAAGCAGTAGCCGCTTGTGATTGTTTATCTTCACGACCTGGTGTTTTGTATTTTAATTTTACAATTAAGAATCGGAATACGAAGTAGTAAATAACTGCGTATACAAGACCTACAGGAATGACTAACCACCATTGTGTCTTATTAGGTAGTA  >  USA300TCH1516_ALE/221899‑222156

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