New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	USA300TCH1516_ALE	= 1892452	88 (0.860)	4 (0.040)	3/278	8.6	4.6%	coding (200/225 nt)	USA300TCH1516_01749	hypothetical protein
	?	USA300TCH1516_ALE	= 1892462	83 (0.860)					coding (190/225 nt)	USA300TCH1516_01749	hypothetical protein
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

AAATTTAACAAATTAAATCAAACCGAATGAGGCTAAATTGGTTATTTTTCAAGATATGATTTGTATAAATCAAAACATTTCTTACAAATCAAATGTGTATAAAATGTGATATACATTTTCAACCTTAAAAAAGTTCTAAAAAAAGATGAG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  USA300TCH1516_ALE/1892303‑1892452 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑aaagatgagACAGTAGATGCTCATCTTTTTTTAGAACTTTTTTAAGGTTGAAAATGTATATCACATTTTATACACATTTGATTTGTAAGAAATGTTTTGATTTATACAAATCATATCTTGAAAAATAACCAATTTAGCCTCATTCGGTTTGATTTAA  <  USA300TCH1516_ALE/1892462‑1892315                                                                                                                                                                                                                                                                                                            AAATTTAACAAATTAAATCAAACCGAATGAGGCTAAATTGGTTATTTTTCAAGATATGATTTGTATAAATCAAAACATTTCTTACAAATCAAATGTGTATAAAATGTGATATACATTTTCAACCTTAAAAAAGTTCTAAAAAAAGATGA                                                                                                                                                       >  1:209608/1‑149  AATTTAACAAATTAAATCAAACCGAATGAGGCTAAATTGGTTATTTTTCAAGATATGATTTGTATAAATCAAAACATTTCTTACAAATCAAATGTGTATAAAATGTGATATACATTTTCAACCTTAAAAAAGTTCTAAAAAAAGATGAG                                                                                                                                                      <  1:897416/149‑1                                     ATTGGTTATTTTTCAAGATATGATTTGTATAAATCAAAACATTTCTTACAAATCAAATGTGTATAAAATGTGATATACATTTTCAACCTTCAAAAAGTTCTAAAAAAAGATGAGACAGTAGATGCTCATCTTTTTTTAGAACTTTTTTA                                                                                                                   <  2:822312/149‑1                                     ATTGGTGTTTTCTCATGTTATTATTTGTATAAATCAAAACTGTTCTTATAACTCAAATGTGTATAAAATGTGATATACATTTTCAACCTTAAAAAAGTTCTAAAAAAAGATTAGACAGTAGATGCTCATCTTTTTTTAGAACTTTTTTA                                                                                                                   <  2:563152/149‑1                                                  CAAGATATGATTTGTATAAATCAAAACATTTCTTACAAATCAAATGTGTATAAAATGTGATATACATTTTCAACCTTAAAAAAGTTCTAAAAAAAGATGAGACAGTAGATGCTCATCTTTTTTTAGAACTTTTTTAAGGTTGAAAATGT                                                                                                      >  2:203742/1‑149                                                                                                                  CATTTTCAACCTTAAAAAAGTTCTAAAAAAAGATGAGACAGTAGATGCTCATCTTTTTTTAGAACTTTTTTAAGGTTGAAAATGTATATCACATTTTATACACATTTGATTTGTAAGAAATGTTTTGATTTATACAAATCATATCTTGA                                      <  1:203742/149‑1                                                                                                                                                AGATGAGACAGTAGATGCTCATCTTTTTTTAGAACTTTTTTAAGGTTGAAAATGTATATCACATTTTATACACATTTGATTTGTAAGAAATGTTTTGATTTATACAAATCATATCTTGAAAAATAACCAATTTAGCCTCATTCGGTTTG        <  2:192261/149‑1                                                                                                                                                  ATGAGACAGTAGATGCTCATCTTTTTTTAGAACTTTTTTAAGGTTGAAAATGTATATCACATTTTATACACATTTGATTTGTAAGAAATGTTTTGATTTATACAAATCATATCTTGAAAAATAACCAATTTAGCCTCATTCGGTTTGAT      <  1:239787/149‑1                                                                                                                                                   tgcGACAGTAGATTCTCATCTTTTTTTAGAACTTTTTTAAGGTTGAAAATGTATATCACATTTTATACACATTTGATTTGTAAGAAATGTTTTGATTTATACAAATCATATCTTGAAAAATAACCAATTTAGCCTCATTCGGTTTGATT     <  1:201246/146‑1                                                                                                                                                   TGAGACAGTAGATGCTCATCTTTTTTTAGAACTTTTTTAAGGTTGAAAATGTATATCACATTTTATACACATTTGATTTGTAAGAAATGTTTTGATTTATACAAATCATATCTTGAAAAATAACCAATTTAGCCTCATTCGGTTTGATT     <  2:320226/149‑1                                                                                                                                                   TGAGACAGTAGATGCTCATCTTTTTTTAGAACTTTTTTAAGGTTGAAAATGTATATCACATTTTATACACATTTGATTTGTAAGAAATGTTTTGATTTATACAAATCATATCTTGAAAAATAACCAATTTAGCCTCATTCGGTTTGATT     <  2:576336/149‑1                                                                                                                                                      GACAGTAGATGCTCATCTTTTTTTAGAACTTTTTTAAGGTTGAAAATGTATATCACATTTTATACACATTTGATTTGTAAGAAATGTTTTGATTTATACAAATCATATCTTGAAAAATAACCAATTTAGCCTCATTCGGTTTGATTTAA  <  2:115434/149‑1                                                                                                                                                                                                                                                                                                            AAATTTAACAAATTAAATCAAACCGAATGAGGCTAAATTGGTTATTTTTCAAGATATGATTTGTATAAATCAAAACATTTCTTACAAATCAAATGTGTATAAAATGTGATATACATTTTCAACCTTAAAAAAGTTCTAAAAAAAGATGAG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  USA300TCH1516_ALE/1892303‑1892452 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑aaagatgagACAGTAGATGCTCATCTTTTTTTAGAACTTTTTTAAGGTTGAAAATGTATATCACATTTTATACACATTTGATTTGTAAGAAATGTTTTGATTTATACAAATCATATCTTGAAAAATAACCAATTTAGCCTCATTCGGTTTGATTTAA  <  USA300TCH1516_ALE/1892462‑1892315

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.