New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	USA300TCH1516_ALE	42499 =	235 (1.150)	19 (0.120) +ATAAATTTTTTGATTATTTT	9/120	NT	17.8%	coding (1467/1524 nt)	USA300TCH1516_00035	hypothetical protein
	?	USA300TCH1516_ALE	= 1912410	0 (0.000)					coding (532/609 nt)	USA300HOU_RS15290	hypothetical protein

ATAAAAAAGACAATTTCTATATTATTTCAATAGAAATTGTCTTTTTT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  USA300TCH1516_ALE/42545‑42499 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CAGCTCGTTGAGCTGCTA‑TTTTCCTTATATTAAGTGCCATT  <  USA300TCH1516_ALE/1912410‑1912370                                                ||||||||||||||||||||                                           ATAAAAAAGACAATTTCTATATTATTTCAATAGAAATTGTCTTTTTTATAAATTTTTTGATTATTTTCAGCTCGCTGAGCTACTACTTTTC                    >  2:3779251/1‑91   AAAAAAGACAATTTCTATATTATTTCAATAGAAATTGTCTTTTTTATAAATTTTTTGATTATTTTCAGCTCGTTGAGCTACTA‑CTTTTCTT                 >  2:2980946/1‑91   AAAAAAGACAATTTCTATATTATTTCAATAGAAATTGTCTTTTTTATAAATTTTTTGATTATTTTCAGCTCGTTAAGCTACTA‑CTTTTCTT                 >  2:2131496/1‑91    AAAAAGACAATTTCTATATTATTTCAATAGAAATTGTCTTTTTTATAAATTTTTTGATTATTTTCAGCTCGTTGAGCTACTA‑CTTTTCTTA                >  2:2145829/1‑91          ACAATTTCTATATTATTTCAATAGAAATTGTCTTTTTTATAAATTTTTTGATTATTTTCAGCTCGTTGAGCTACTA‑CTTTTCTTATATTAA          >  2:766059/1‑91          ACAATTTCTATATTATTTCAATAGAAATTGTCTTTTTTATAAATTTTTTGATTATTTTCAGCTCGTTGAGCTACTA‑CTTTTCTTATATTAA          >  2:1545376/1‑91           CAATTTCTATATTATTTCTATAGAAATTGTCTTTTTTATAAATTTTTTGATTATTTTCAGCTCGTTGAGCTACTA‑CTTTTCTTATATTAAG         >  2:2041147/1‑91            AATTTCTATATTATTTCAATAGAAATTGTCTTTTTTATAAATTTTTTGATTATTTTCAGCTCGTTGAGCTACTA‑CTTTTCTTATATTAAGT        >  2:506469/1‑91            AATTTCTATATTATTTCAATAGAAATTGTCTTTTTTATAAATTTTTTGATTATTTTCAGCTCGTTGAGCTACTA‑CTTTTCTTATATTAAGT        >  2:73485/1‑91            AATTTCTATATTATTTCAATAGAAATTGTCTTTTTTATAAATTTTTTGATTATTTTCAGCTCGTTGAGCTACTA‑CTTTTCTTATATTAAGT        >  2:73521/1‑91             ATTTCTATATTATTTCAATAGAAATTGTCTTTTTTATAAATTTTTTGATTATTTTCAGCTCGTTGAGCTACTA‑CTTTTCTTATATTAAGTt       >  2:1663003/1‑90             ATTTCTATATTATTTCAATAGAAATTGTCTTTTTTATAAATTTTTTGATTATTTTCAGCTCGTTGAGCTACTA‑CTTTTCTTATATTAAGTG       >  2:3021596/1‑91              TTTCTATATTATTTCAATAGAAATTGTCTTTTTTATAAATTTTTTGATTATTTTCAGCTCGTTGAGCTACTA‑CTTTTCTTATATTAAGTGC      >  2:1984925/1‑91              TTTCTATATTATTTCAATAGAAATTGTCTTTTTTATAAATTTTTTGATTATTTTCAGCTCGTTGAGCTACTA‑CTTTTCTTATATTAAGTGC      >  2:2921893/1‑91              TTTCTATATTATTTCAATAGAAATTGTCTTTTTTATAAATTTTTTGATTATTTTCAGCTCGTTGAGCTACTA‑CTTTTCTTATATTAAGTGC      >  2:2922004/1‑91                 CTATATTATTTCAATAGAAATTGTCTTTTTTATAAATTTTTTGATTATTTTCAGCTCGTTGAGCTACTA‑CTTTTCTTATATTAAGTGCCAT   >  1:919242/1‑91                  TATATTATTTCAATAGAAATTGTCTTTTTTATAAATTTTTTGATTATTTTCAGCTCGTTGAGCTACTA‑CTTTTCTTATATTAAGTGCTATT  >  2:3831091/1‑91                  TATATTATTTCAATAGAAATTGTCTTTTTTATAAATTTTTTGATTATTTTCAGCTCGTTGAGCTACTA‑CTTTTCTTATATTAAGTGCCATT  >  2:329138/1‑91                  TATATTATTTCAATAGAAATTGTCTTTTTTATAAATTTTTTGATTATTTTCAGCTCGTTGAGCTACTA‑CTTTTCTTATATTAAGTGCCATT  >  2:3704203/1‑91                                                ||||||||||||||||||||                                           ATAAAAAAGACAATTTCTATATTATTTCAATAGAAATTGTCTTTTTT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  USA300TCH1516_ALE/42545‑42499 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CAGCTCGTTGAGCTGCTA‑TTTTCCTTATATTAAGTGCCATT  <  USA300TCH1516_ALE/1912410‑1912370

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