New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP000730	= 2543400	83 (0.940)	5 (0.060)	5/240	NT	5.8%	intergenic (+5/‑373)	USA300HOU_2403/hlgC	hypothetical protein/gamma hemolysin component C
	?	CP000730	= 2543418	86 (1.040)					intergenic (+23/‑355)	USA300HOU_2403/hlgC	hypothetical protein/gamma hemolysin component C

CAGGATTTTTTAACAAATTGAATCAGCCTTATAACATTAAATTATTTTATCGTACATTAAATTTAATAATAACAACTGATTTTTATAAGAATAAAGTATCGAACCATAGTAGATACACAAATAATACAAATGAAACAATTTAACTTGA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  CP000730/2543253‑2543400 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ttaacttgaTAATATTTATTTAAGCTT‑TCAAGTTAAATTGTTTCATTTGTATTATTTGTGTATCTACTATGGTTCGATACTTTATTCTTATAAAAATCAGTTGTTATTATTAAATTTAATGTACGATAAAATAATTTAATGTTATAAGG  <  CP000730/2543418‑2543279                                                                                                                                                                                                                                                                                                   CAGGATTTTTTAACAAATTGAATCAGCCTTATAACATTAAATTATTTTATCGTACATTAAATTTAATAATAACAACTGATTTTTATAAGAATAAAGTATCGAACCATAGTAGATACACAAATAATACAAATGAAACAATTT                                                                                                                                                      <  1:968169/141‑1 CAGGATTTTTTAACAAATTGAATCAGCCTTATAACATTAAATTATTTTATCGTACATTAAATTTAATAATAACAACTGATTTTTATAAGAATAAAGTATCGAACCATAGTAGATACACAAATAATACAAATGAAACAATTT                                                                                                                                                      <  2:194493/141‑1      TTTTTTAACAAATTGAATCAGCCTTATAACATTAAATTATTTTATCGTACATTAAATTTAATAATAACAACTGATTTTTTTTAGTATTAATTATCGAACCATAGTAGATACACAAATAATACAAATGAAACAATTTAACTT                                                                                                                                                 >  2:270776/1‑141        TTTTAACAAATTGAATCAGCCTTATAACATTAAATTATTTTATCGTACATTAAATTTAATAATAACAACTGATTTTTATAAGAATAAAGTATCGAACCATAGTAGATACACAAATAATACAAATGAAACAATTTAACTTGA                                                                                                                                               <  2:562599/141‑1        TTTTAACAAATTGAATCAGCCTTATAACATTAAATTATTTTATCGTACATTAAATTTAATAATAACAACTGATTTTCCTCAGACTAAAGTATCGCACCATAGTAGATACACAAATAATACAAAAGAAACAATTTAACTTGA                                                                                                                                               >  1:915485/1‑141          TTAACAAATTGAATCAGCCTTATAACATTAAATTATTTTATCGTACATTAAATTTAATAATAACAACTGATTTTTATAAGAATAAAGTATCGAACCATAGTAGATACACAAATAATACAAATGAAACAATTTAACTTG                                                                                                                                                <  2:684488/138‑1          TTAACAAATTGAATCAGCCTTATAACATTAAATTATTTTATCGTACATTAAATTTAATAATAACAACTGATTTTTATAAGAATAAAGTATCGAACCATAGTAGATACACAAATAATACAAATGAAACAATTTAACTTG                                                                                                                                                >  1:684488/1‑138                                      TAAATTATTTTATCGTACATTAAATTTAATAATAACAACTTATTTTTATAAGAATAAAGTATTGAAACATAGTAGATACACAAATAATACAAATGAAACAATTTAACGTGATAAGATTTATTTATGCCT‑TCAAGTTAAATT                                                                                                                >  2:770688/1‑141                                      TAAATTATTTTATCGTACATTAAATTTAATAATAACAACTGATTTTTATAAGAATAAAGTATCGAACCATAGTAGATACACAAATAATACAAATGAAACAATTTAACTTGATAATATTTATTTAAGCTT‑TCAAGTTAAATT                                                                                                                <  1:773127/141‑1                                          TTATTTTATCGTACATTAAATTTAATAATAACAACTGATTTTTATAAGAATAAAGTATCGAACCATAGTAGATACACAAATAATACAAATGAAACAATTTAACTTGATAATATTTATTTAAGCTT‑TCAAGTTAAATTGTTT                                                                                                            <  2:202186/141‑1                                                                                                              TAGATACACAAATAATACAAATGAAACAATTTAACTTGATAATATTTATTTAAGCTT‑TCAAGTTAAATTGTTTCATTTGTATTATTTGTGTATCTACTATGGTTCGATACTTTATTCTTATAAAAATCAGTTGTTATTATT                                        <  1:7630/141‑1                                                                                                              TAGATACACAAATAATACAAATGAAACAATTTAACTTGA‑AAGCTTAAATAAATATTATCAAGTTAAATTGTTTCATTTGTATTATTTGTGTATCTACTATGGTTCGATACTTTATTCTTATAAAAATCAGTTGTTATTATT                                        <  2:7630/141‑1                                                                                                                                            TTAACTTGATAATATTTATTTAAGCTT‑TCAAGTTAAATTGTTTCATTTGTATTATTTGTGTATCTACTATGGTTCGATACTTTATTCTTATAAAAATCAGTTGTTATTATTAAATTTAATGTACGATAAAATAATTTAATG          <  1:489385/141‑1                                                                                                                                            TTAACTTGATAATATTTATTTAAGCTT‑TCAAGTTAAATTGTTTCATTTGTATTATTTGTGTATCTACTATGGTTCGATACTTTATTCTTATAAAAATCAGTTGTTATTATTAAATTTAATGTACGATAAAATAATTTAATG          <  1:489476/141‑1                                                                                                                                                 TTGATAATATTTATTTAAGCTT‑TCAAGTTAAATTGTTTCATTTGTATTATTTGTGTATCTACTATGGTTCGATACTTTATTCTTATAAAAATCAGTTGTTATTATTAAATTTAATGTACGATAAAATAATTTAATGTTATA     <  1:916068/141‑1                                                                                                                                                  TGATAATATTTATTTAAGCTT‑TCAAGTTAAATTGTTTCATTTGTATTATTTGTGTATCTACTATGGTTCGATACTTTATTCTTATAAAAATCAGTTGTTATTATTAAATTTAATGTACGATAAAATAATTTAATGTTATAA    <  2:749245/141‑1                                                                                                                                                    ATAATATTTATTTAAGCTT‑TCAAGTTAAATTGTTTCATTTGTATTATTTGTGTATCTACTATGGTTCGATACTTTATTCTTATAAAAATCAGTTGTTATTATTAAATTTAATGTACGATAAAATAATTTAATGTTATAAGG  <  1:558346/141‑1                                                                                                                                                                                                                                                                                                   CAGGATTTTTTAACAAATTGAATCAGCCTTATAACATTAAATTATTTTATCGTACATTAAATTTAATAATAACAACTGATTTTTATAAGAATAAAGTATCGAACCATAGTAGATACACAAATAATACAAATGAAACAATTTAACTTGA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  CP000730/2543253‑2543400 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ttaacttgaTAATATTTATTTAAGCTT‑TCAAGTTAAATTGTTTCATTTGTATTATTTGTGTATCTACTATGGTTCGATACTTTATTCTTATAAAAATCAGTTGTTATTATTAAATTTAATGTACGATAAAATAATTTAATGTTATAAGG  <  CP000730/2543418‑2543279

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.