New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	USA300TCH1516_ALE	633406 =	116 (0.890)	6 (0.050)	6/282	8.3	4.8%	intergenic (+130/‑414)	proP/yhfT	Proline/betaine transporter/putative acyl‑‑CoA ligase YhfT
	?	USA300TCH1516_ALE	633436 =	128 (1.030)					intergenic (+160/‑384)	proP/yhfT	Proline/betaine transporter/putative acyl‑‑CoA ligase YhfT
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

TTAGAGTCTCAATATTAATTGCGTTGGACAAAATACTCTAAGACATATTTACATCCTAACATTTCAATAGCAAGAGAATTTTAAGTATTCAAAGCTAAACATATGCTTTAAGTCCCCTCTTTCCCCCATTGCGATAATCATTGCAGTGGGGG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  USA300TCH1516_ALE/633557‑633406 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑tgggggAAAGAGGGGACTTAAAGCATATGTTTAGCTTTGAATACTTAAAATTCTCTTGCTATTGAAATGTTAGGATGTAAATATGTCTTAGAGTATTTTGTCCAACGCAATTAATATTGAGACTCTAACCTTCAATATTATTATAGAGAA  >  USA300TCH1516_ALE/633436‑633579                                                                                                                                                                                                                                                                                                          TTAGAGTCTCAATATTAATTGCGTTGGACAAAATACTCTAAGACATATTTACATCCTAACATTTCAATAGCAAGAGAATTTTAAGTATTCAAAGCTAAACATATGCTTTAAGTCCCCTCTTTCCCCCATTGCGATAATCATTGCAGTG                                                                                                                                                      <  1:793759/148‑1  TAGAGTCTCAATATTAATTGCGTTGGACAAAATACTCTAAGACATATTTACATCCTAACATTTCAATAGCAAGAGAATTTTAAGTATTCAAAGCTAAACATATGCTTTAAGTCCCCTCTTTCCCCCATTGCGATAATCATTGCAGTGG                                                                                                                                                     >  1:139662/1‑148  TAGAGTCTCAATATTAATTGCGTTGGACAAAATACTCTAAGACATATTTACATCCTAACATTTCAATAGCAAGAGAATTTTAAGTATTCAAAGCTAAACATATGCTTTAAGTCCCCTCTTTCCCCCATTGCGATAATCATTGCAGTGG                                                                                                                                                     >  1:832428/1‑148  TAGAGTCTCAATATTAATTGCGTTGGACAAAATACTCTAAGACATATTTACATCCTAACATTTCAATAGCAAGAGAATTTTAAGTATTCAAAGCTAAACATATGCTTTAAGTCCCCTCTTTCCCCCATTGCGATAATCATTGCAGTGG                                                                                                                                                     >  2:511191/1‑148    GAGTCTCAATATTAATTGCGTTGGACAAAATACTCTAAGACATATTTACATCCTAACATTTCAATAGCAAGAGAATTTTAAGTATTCAAAGCTAAACATATGCTTTAAGTCCCCTCTTTCCCCCAATGCGATAATCATTGCAGTGGGG                                                                                                                                                   <  2:957830/148‑1     AGTCTCAATACTAATTGCGTTCGACAAAATACTCGAAGACAAATTTACATCCTAACATTTCAATAGCCAGAGAATTCTAAGTATTCAAAGCTAAACATATGCTTTAAGTCCCCTCTTTCCCCCATTGCGATAATCATTGCAGTGGGGG                                                                                                                                                  <  2:289283/148‑1                                        AAGACATATTTACATCCTAACATTTCAATAGCAAGAGAATTTTAAGTATTCAAAGCTAAACATATGCTTTAAGTCCCCTCTTTCCCCCATTGCGATAATCATTGCAGTGGGGGAAAGAGGGGACTTAAAGCATATGTTTAGCTTTGAA                                                                                                               >  1:1073332/1‑148                                                      TCCTAACATTTCAATAGCAAGAGAATTTTAAGTATTCAAAGCTAAACATATGCTTTAAGTCCCCTCTTTCCCCCATTGCGATAATCATTGCAGTGGGGGAAAGAGGGGACTTAAAGCATATGTTTAGCTTTGAATACTTAAAATTCTC                                                                                                 >  1:4924/1‑148                                                         TAACATTTCAATAGCAAGAGAATTTTAAGTATTCAAAGCTAAACATATGCTTTAAGTCCCCTCTTTCCCCCATTGCGATAATCATTGCAGTGGGGGAAAGAGGGGACTTAAAGCATATGTTTAGCTTTGAATACTTAAAATTCTCTTG                                                                                              >  1:1211229/1‑148                                                                       CAAGAGAATTTTAAGTATTCAAAGCTAAACATATGCTTTAAGTCCCCTCTTTCCCCCATTGCGATAATCATTGCAGTGGGGGAAAGAGGGGACTTAAAGCATATGTTTAGCTTTGAATACTTAAAATTCTCTTGCTATTGAAATGTTA                                                                                <  2:1211229/148‑1                                                                          GAGAATTTTAAGTATTCAAAGCTAAACATATGCTTTAAGTCCCCTCTTTCCCCCATTGCGATAATCATTGCAGTGGGGGAAAGAGGGGACTTAAAGCATATGTTTAGCTTTGAATACTTAAAATTCTCTTGCTATTGAAATGTTAGGA                                                                             <  2:4924/148‑1                                                                                        TTCAAAGCTAAACATATGCTTTAAGTCCCCTCTTTCCCCCATTGCGATAATCATTGCAGTGGGGGAAAGAGGGGACTTAAAGCATATGTTTAGCTTTGAATACTTAAAATTCTCTTGCTATTGAAATGTTAGGATGTAAATATGTCTT                                                               <  2:1073332/148‑1                                                                                                                                                    GGGGGAAAGAGGGGACTTAGAGCATATGTTTAGCTTTGAATACTTAAACTTCTATTGCTATTTTATTGTTAGGATTTAAATATGTCTTAGAGTATTTTGTCCAACGCAATTAATATTGAGACTCTAACCTTCAATATTATTATAGAGA   <  2:1205596/148‑1                                                                                                                                                     GGGGAAAGAGGGGACTTAAAGCATATGTTTAGCTTTGAATACTTAAAATTCTCTTGCTATTGAAATGTTAGGATGTAAATATGTCTTAGCGCATTTTATCCAACGCAAGTAATATTGAGACTCTAACCTTCAATATTATTATAGAAAA  >  2:639962/1‑148                                                                                                                                                     GGGGAAAGAGGGGACTTAAAGCATATGTTTAGCTTTGAATACTTAAAATTCTCTTGCTATTGAAATGTTAGGATGTAAATATGTCTTAGAGTATTTTGTCCAACGCAATTAATATTGAGACTCTAACCTTCAATATTCTTATAGCGAA  >  2:595781/1‑148                                                                                                                                                     GGGGAAAGAGGGGACTTAAAGCATATGTTTAGCTTTGAATACTTAAAATTCTCTTGCTATTGAAATGTTAGGATGTAAATATGTCTTAGAGTATTTTGTCCAACGCAATTAATATTGAGACTCTAACCTTCAATATTATTATAGAGAA  >  2:7019/1‑148                                                                                                                                                                                                                                                                                                          TTAGAGTCTCAATATTAATTGCGTTGGACAAAATACTCTAAGACATATTTACATCCTAACATTTCAATAGCAAGAGAATTTTAAGTATTCAAAGCTAAACATATGCTTTAAGTCCCCTCTTTCCCCCATTGCGATAATCATTGCAGTGGGGG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  USA300TCH1516_ALE/633557‑633406 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑tgggggAAAGAGGGGACTTAAAGCATATGTTTAGCTTTGAATACTTAAAATTCTCTTGCTATTGAAATGTTAGGATGTAAATATGTCTTAGAGTATTTTGTCCAACGCAATTAATATTGAGACTCTAACCTTCAATATTATTATAGAGAA  >  USA300TCH1516_ALE/633436‑633579

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.