New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	USA300TCH1516_ALE	= 2255601	95 (0.970)	7 (0.080)	5/142	NT	7.5%	intergenic (‑279/‑36)	deoC2/deoD1	Deoxyribose‑phosphate aldolase 2/Purine nucleoside phosphorylase DeoD‑type 1
	?	USA300TCH1516_ALE	= 2255626	89 (1.020)					intergenic (‑304/‑11)	deoC2/deoD1	Deoxyribose‑phosphate aldolase 2/Purine nucleoside phosphorylase DeoD‑type 1

GAACGATGACTTGACAACAAGCTAATCAGGATTATATTTTTATAATTCTTTAATTCTATAGTACAAAAATTCGCAAAAAAGGGAAACAAATGTTATCTT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  USA300TCH1516_ALE/2255503‑2255601 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑tgttatcttCTCCTTAATATTCATTAATAATTTTAAGATAACATTTGTTTCCCTTTTTTGCGAATTTTTGTACTATAGAATTAAAGAATTATAAAAATA  <  USA300TCH1516_ALE/2255626‑2255537                                                                                                                                                                                               GAACGATGACTTGACAACAAGCTAATCAGGATTATATTTTTATAATTCTTTAATTCTATAGTACAAAAATTCGCAAAAAAGGGAAACAAAT                                                                                                    >  1:1497159/1‑91  AACGATGACTTGACAACAAGCTAATCAGGATTATATTTTTATAATTCTTTAATTCTATAGTACAAAAATTCGCAAAAAAGGGAAACAAATG                                                                                                   >  1:2057239/1‑91  AACGATGACTTGACAACAAGCTAATCAGGATTATATTTTTATAATTCTTTAATTCTATAGTACAAAAATTCGCAAAAAAGGGAAACAAATG                                                                                                   >  1:396160/1‑91  AACGATGACTTGACAACAAGCTAATCAGGATTATATTTTTATAATTCTTTAATTCTATAGTACAAAAATTCGCAAAAAAGGGAAACAAATG                                                                                                   >  1:2945267/1‑91  AACGATGACTTGACAACAAGCTAATCAGGATTATATTTTTATAATTCTTTAATTCTATAGTACAAAAATTCGCAAAAAAGGGAAACAAATG                                                                                                   >  1:295952/1‑91   ACGATGACTTGACAACAAGCTAATCAGGATTATATTTTTATAATTCTTTAATTCTATAGTACAAAAATTCGCAAAAAAGGGAAACAAATGT                                                                                                  >  1:2382094/1‑91   ACGATGACTTGACAACAAGCTAATCAGGATTATATTTTTATAATTCTTTAATTCTATAGTACAAAAATTCGCAAAAAAGGGAAACAAATGT                                                                                                  >  1:2381741/1‑91   ACGATGACTTGACAACAAGCTAATCAGGATTATATTTTTATAATTCTTTAATTCTATAGTACAAAAATTCGCAAAAAAGGGAAACAAATGT                                                                                                  >  1:1410412/1‑91   ACGATGACTTGACAACAAGCTAATCAGGATTATATTTTTATAATTCTTTAATTCTATAGTACAAAAATTCGCAAAAAAGGGAAACAAATGT                                                                                                  >  1:1410192/1‑91     GATGACTTGACAACAAGCTAATCAGGATTATATTTTTATAATTCTTTAATTCTATAGTACAAAAAGTCGCAAAAAAGGGAAACAAATGTTA                                                                                                >  1:3860838/1‑91     GATGACTTGACAACAAGCTAATCAGGATTATATTTTTATAATTCTTTAATTCTATAGTACAAAAAATCGCAAAAAAGGGAAACAAATGTTA                                                                                                >  1:3862014/1‑91        GACTTGACAACAAGCTAATCAGGATTATATTTTTATAATTCTTTAATTCTATAGTACAAAAATTCGCAAAAAAGGGAAACAAATGTTATCT                                                                                             <  1:2882101/91‑1        GACTTGACAACAAGCTAATCAGGATTATATTTTTATAATTCTTTAATTCTATAGTACAAAAATTCGCAAAAAAGGGAAACAAATGTTATCT                                                                                             <  1:2881881/91‑1        GACTTGACAACAAGCTAATCAGGATTATATTTTTATAATTCTTTAATTCTATAGTACAAAAATTCGCAAAAAAGGGAAACAAATGTTATCT                                                                                             <  1:2198537/91‑1        GACTTGACAACAAGCTAATCAGGATTATATTTTTATAATTCTTTAATTCTATAGTACAAAAATTCGCAAAAAAGGGAAACAAATGTTATCT                                                                                             <  1:2520673/91‑1         ACTTGACAACAAGCTAATCAGGATTATATTTTTATAATTCTTTAATTCTATAGTACAAAAATTCGCAAAAAAGGGAAACAAATGTTATCTT                                                                                            >  1:744258/1‑91         ACTTGACAACAAGCTAATCAGGATTATATTTTTATAATTCTTTAATTCTATAGTACAAAAATTCGCAAAAAAGGGAAACAAATGTTATCTT                                                                                            >  1:744348/1‑91                                   TATTTTTAT‑ATTCTTTAATTCTATAGTACAAAAATTCGCAAAAAAGGGAAACAAATGTTATCTTCTCCTTAATATTCATTAATAATTTTAA                                                                 <  1:2030708/91‑1                                   TATTTTTAT‑ATTCTTTAATTCTATAGTACAAAAATTCGCAAAAAAGGGAAACAAATGTTATCTTCTCCTTAATATTCATTAATAATTTTAA                                                                 <  1:2030741/91‑1                                       TTTATAATTCTTTAATTCTATAGTACAAAAATTCGCAAAAAAGGGAAACAAATGTTATCTTCTCCTTAATATTCATTAATAATTTTAAGAT                                                              <  1:2297557/91‑1                                          ATAATTCTTTAATTCTATAGTACAAAAATTCGCAAAAAAGGGAAACAAATGTTATCTTCTCCTTAATATTCATTAATAATTTTAAGATAAC                                                           <  1:823347/91‑1                                            AATTCTTTAATTCTATAGTACAAAAATTCGCAAAAAAGGGAAACAAATGTTATCTTCTCCTTAATATTCATTAATAATTTTAAGATAACAT                                                         <  1:1398242/91‑1                                            AATTCTTTAATTATATAGTACAAAAATTCGCAAAAAAGGGAAACAAATGTTATCTTCTCCTTAATATTCATTAATAATTTTAAGATAACAT                                                         <  1:1398254/91‑1                                                                         GCAAAAAAGGGAAACAAATGTTATCTTCTCCTTAATATTCATTAATAATTTTAAGATAACATTTGTTTCCCTTTTTTGCGAATTTTTGTAC                            <  1:40018/91‑1                                                                                           TGTTATCTTCTCCTTAATATTCATTAATAATTTTAAGATAACATTTGTTTCCCTTTTTTGCGAATTTTTGTACTATAGAATTAAAGAATTA          >  1:1115735/1‑91                                                                                            GTTATCTTCTCCTTAATATTCATTAATAATTTTAAGATAACATTTGTTTCCCTTTTTTGCGAATTTTTGTACTATCGAATTAAAGAATTAT         >  1:4018321/1‑91                                                                                               ATCTTCTCCTTAATATTCATTAATAATTTTAAGATAACATTTGTTTCCCTTTTTTGCGAATTTTTGTACTATAGAATTAAAGAATTATAAA      <  1:2133116/91‑1                                                                                               ATCTTCTCCTTAATATTCATTAATAATTTTAAGATAACATTTGTTTCCCTTTTTTGCGAATTTTTGTACTATAGAATTAAAGAATTATAAA      <  1:3905674/91‑1                                                                                               ATCTTCTCCTTAATATTCATTAATAATTTTAAGATAACATTTGTTTCCCTTTTTTGCGAATTTTTGTACTATAGAATTAAAGAATTATAAA      >  1:164247/1‑91                                                                                               ATCTTCTCCTTAATATTCATTAATAATTTTAAGATAACATTTGTTTCCCTTTTTTGCGAATTTTTGTACTATAGAATTAAAGAATTATAAA      >  1:1645876/1‑91                                                                                               ATCTTCTCCTTAATATTCATTAATAATTTTAAGATAACATTTGTTTCCCTTTTTTGCGAATTTTTGTACTATAGAATTAAAGAATTATAAA      >  1:164809/1‑91                                                                                               ATCTTCTCCTTAATATTCATTAATAATTTTAAGATAACATTTGTTTCCCTTTTTTGCGAATTTTTGTACTATAGAATTAAAGAATTATAAA      <  1:2048764/91‑1                                                                                                TCTTCTCCTTAATATTCATTAATAATTTTAAGATAACATTTGTTTCCCTTTTTTGCGAATTTTTGTACTATAGAATTAAAGAATTATAAAA     <  1:694600/91‑1                                                                                                 CTTCTCCTTAATATTCATTAATAATTTTACGATAACATTTGTTTCCCTTTTTTGCGAATTTTTGTACTATAGAATTAAAGAATTATAAAAA    <  1:2308045/91‑1                                                                                                 CTTCTCCTTAATATTCATTAATAATTTTAAGATAACATTTGTTTCCCTTTTTTGCGAATTTTTGTACTATAGAATTAAAGAATTATAAAAA    >  1:3522995/1‑91                                                                                                 CTTCTCCTTAATATTCATTAATAATTTTAAGATAACATTTGTTTCCCTTTTTTGCGAATTTTTGTACTATAGAATTAAAGAATTATAAAAA    >  1:3968891/1‑91                                                                                                 CTTCTCCTTAATATTCATTAATAATTTTAAGATAACATTTGTTTCCCTTTTTTGCGAATTTTTGTACTATAGAATTAAAGAATTATAAAAA    >  1:1854925/1‑91                                                                                                  TTCTCCTTAATATTCATTAATAATTTTAAGATAACATTTGTTTCCCTTTTTTGCGAATTTTTGTACTATAGAATTAAAGAATTATAAAAAT   >  1:1198537/1‑91                                                                                                   TCTCCTTAATATTCATTAATAATTTTAAGATAACATTTGTTTCCCTTTTTTGCGAATTTTTGTACTATAGAATTAAAGAATTATAAAAATA  <  1:3950068/91‑1                                                                                                   TCTCCTTAATATTCATTAATAATTTTAAGATAACATTTGTTTCCCTTTTTTGCGAATTTTTGTACTATAGAATTAAAGAATTATAAAAATA  <  1:3950385/91‑1                                                                                                                                                                                               GAACGATGACTTGACAACAAGCTAATCAGGATTATATTTTTATAATTCTTTAATTCTATAGTACAAAAATTCGCAAAAAAGGGAAACAAATGTTATCTT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  USA300TCH1516_ALE/2255503‑2255601 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑tgttatcttCTCCTTAATATTCATTAATAATTTTAAGATAACATTTGTTTCCCTTTTTTGCGAATTTTTGTACTATAGAATTAAAGAATTATAAAAATA  <  USA300TCH1516_ALE/2255626‑2255537

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