New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	USA300TCH1516_ALE	2653484 =	26 (0.810)	3 (0.100)	3/254	NT	11.0%	intergenic (+90/‑254)	fbp/USA300HOU_RS13650	Fructose‑1,6‑bisphosphatase class 3/hypothetical protein
	?	USA300TCH1516_ALE	2653543 =	23 (0.730)					intergenic (+149/‑195)	fbp/USA300HOU_RS13650	Fructose‑1,6‑bisphosphatase class 3/hypothetical protein

TAGATATTTTGAAAATGTTAATGCATGATCGTTACTTAGACTAAAGACGACATTTGATGCATGTATCGTGCACTTATTTAGTGGTACTGTGTTTACGCATTGGCTACGCAAACACGATGATAAATAGGCGACCTAGCTACACCGAAAAAAATCCCCTCACTATTGCGAGTAGTGAGGGGATTGGTGTATCTATGCTAATTCCTGTTAACTGTATTATAACAACTTTACAGCAAAAAAATGCAAAATCAACTA  >  USA300TCH1516_ALE/2653351‑2653602                                                                                                                                      |                                                                                                                       tAGATATTTTGAAAATGTTAATGCATGATCGTTACTTAGACTAAAGACGACATTTGATGCATGTATCGTGCACTTATTTAGTGGTACTGTGTTTACGCATTGGCTACGGAGACCCGATGATACCTAGGCGACCTAGCTaca                                                                                                                 <  1:57925/141‑1 (MQ=255) tAGATATTTTGAAAATGTTAATGCATGATCGTTACTTAGACTAAAGACGACATTTGATGCATGTATCGTGCACTTATTTAGTGGTACTGTGTTTACGCATTGGCTACGCAAACACGATGATAAATAGGCGACCTAGCTaca                                                                                                                 >  1:26953/1‑141 (MQ=255)     tatTTTGAAAATGTTAATGCATGATCGTTGCTTAGACTAAAGACGACATTTGATGCATGTATCGTGCACTTATTTAGTGGTACTGTGTTTACGCATTGGCTACGCACACATTACTATAAATAGGCGACCTAGCTACACCGa                                                                                                             >  2:2185/1‑141 (MQ=255)                 gTTAATGCATGATCGTTACTTATACTAAAGACGACATTTGATGCATGTATCGTGCACTTATTTAGTGGTACTGTGTTTACGCATTGGCTACGCAAACACGATGATAAATAGGCGACCTAGCTACACCGAAAAAAATCCCCt                                                                                                 <  1:29377/141‑1 (MQ=255)                           tgtCGTTAATTAGACTAAAGGCGGCATTGGATGCATGTATCGTGCACTTATTGAGTGGTACTGTGTTTACGCATTGTCTACGCAAACACGATGATAAAGAGGCGAACTAGCTACACCGAAAAAAATCCCCTCACTATTGCg                                                                                       <  2:231502/139‑1 (MQ=255)                               gTTACGTAGACTAAAGACGACATTTGATGCATGTATCGTGCACTTATGTAGGGGTACTGTGTTTACGCATTGGCTACGCAAACACGATGATAAATAGGCGACCTAGCTACACCGAAAAAAATCCCCTCACTATTGCGagta                                                                                   <  1:314127/141‑1 (MQ=255)                                  aCTTAGCCTAAGGACGACATCTGATGCATGTATCGTGCACTTATTTAGTGGTACTGTGTTTACGCATTGGCTACGCAAACACGATGATAAATAGGCGACCTAGCTACACCGAAAAAAATCCCCTCACTATTGCGAGTAGTg                                                                                <  1:6338/141‑1 (MQ=255)                                   cTTAGACTAAAGACGACATTTGATGCATGTATCGTGCACTTATTTAGTGGTACTGTGTTTACGCATTGGCTACGCAAACACGATGATAAATAGGCGACCTAGCTACACCGAAAAAAATCCCCTCACTATTGCGAGTAGTGa                                                                               >  2:220783/1‑141 (MQ=255)                                     tAGACTCAGGACGACATTTGATAAATTTATCGTGCACTTATTTAGTGGTACTGTGTTTACGCATTGCCTACGCAAACACGATGATAAATAGGCGACCTAGCTACACCGAAAAAAATCCCCTCACTATTGCGAGTAGTGAgg                                                                             <  1:165309/141‑1 (MQ=255)                                      gtagaagcgagggtgtcggtcatttcattaatttattagttgattttgcatttttttgctgtaaagttgttataatacagttaacaggaattagcaTAGCTACACCGAAAAAAATCCCCTCACTATTGCGAGTAGTGAggg                                                                            <  2:138811‑M1/45‑1 (MQ=255)                                         cTAAAGACGACATTTGATGCATGTATCGTGCACTTATTTAGTGGTACTGTGTTTACGCATTGGCTACGCAAACACGATGATAAATAGGCGACCTAGCTACACCGAAAAAAATCCCCTCACTATTGCGAGTAGTGAGGGGAt                                                                         >  1:279271/1‑141 (MQ=255)                                            gcgagggtgtcggtcatttcattaatttattagttgattttgcatttttttgctgtaaagttgttataatacagttaacaggaattagcaTAGCTACACCGAAAAAAATCCCCTCACTATTGCGAGTAGTGAGGGGATTgg                                                                      >  1:138811‑M1/91‑141 (MQ=255)                                                  gtgtcggtcattttattaagttatgagttgagtttgcattgttttgctgtaaagttgttataatacagttaacaggaattagcaTAGATACACC‑‑‑‑‑‑AATCCCCTCACTATTGCGAGTAGTGAGGGGATTGGTGTATCTATGCt                                                          >  2:228946‑M1/85‑141 (MQ=255)                                                                      gCACTTATTTAGTGGTACTGTGTTTACGCATTGGCTACGCAAACACGATGATAAATAGGCGACCTAGCTACACCGAAAAAAATCCCCTCACTATTGCGAGTAGTGAGGGGATTGGTGTATCTATGCTACTTCCTGTTAACt                                            >  1:115087/1‑141 (MQ=255)                                                                       cACTTATTTAGTGGTACTGTGTTTACGCATTGGCTACGCAAACACGATGATAAATAGGCGACCTAGCTACACCGAAAAAAATCCCCTCACTATTGCGAGTAGTGAGGGGATTGGTGTATCTATGCTAATTCCTGTTAACTg                                           >  1:28168/1‑141 (MQ=255)                                                                          ttATTTAGTGGTACTGTGTTTACGCATTGGCTACGCAAACACGATGATAAATAGGCGACCTAGCTACACCGAAAAAAATCCCCTCACTATTGCGAGTAGTGAGGGGATTGGTGTATCTATGCTAATTCCTGTTAACTGtat                                        >  1:88744/1‑141 (MQ=255)                                                                                 gTGGTAATGTGTTTATGCATTTGCGACGCAAACACGATGATAAATAGGCGAGCTAGCTACAGCGAAAAAAATCCCCTCACTATTGCGAGTAGTGAGGGGATTGGTGTATCTATGCTAATTCCTGTTAACTGTATTATaaca                                 <  2:308291/141‑1 (MQ=255)                                                                                          tgtTTACGCATTGGCTACGCAAACACGATGATAAATAGGCGACCTAGCTACACCGAAAAAAATCCCCTCACTATTGCGAGTAGTGAGGGGATTGGTGTATCTATGCTAATTCCTGTTAACTGTATTATAACAACTTTACAg                        >  1:160999/1‑141 (MQ=255)                                                                                           gtTTACGCATTGGCTACGCAAACACGATGATAAATAGGCGACCTAGCTACACCGAAAAAAATCCCCTCACTATTGCGAGTAGTGAGGGGATTGGTGTATCTATGCTAATTCCTGTTAACTGTATTATAACAACTTTACAGc                       >  1:383579/1‑141 (MQ=255)                                                                                              tACGCATTGGCTACGCAAACACGATGATAAATAGGCGACCTAGCTACACCGAAAAACATTTTCTGACTATTGCGAGTTGGGAGGGGGTTGGTGTATCTATGCTAGTTCCTGTTAACTGTATTATAACTACTTTACAGCaaa                    >  1:248600/1‑141 (MQ=255)                                                                                                     tGGCTACGCAAACACGATGATAAATAGGCGACCTAGCTACACCGAAAAAAATCCCCTCACTATTGCGAGTAGTGAGGGGATTGGTGTATCTATGCTAATTCCTGTTAACTGTATTATAACAACTTTACAGCAAAAAAATGc             <  1:62064/141‑1 (MQ=255)                                                                                                     tGGCTACGCAAACACGATGATAAATAGGCGACCTAGCTACACCGAAAAAAATCCCCTCACTATTGCGAGTAGTGAGGGGATTGGTGTATCTATGCTAATTCCTGTTAACTGTATTATAACAACTTTACAGCAAAAAAATGc             <  1:300365/141‑1 (MQ=255)                                                                                                     tGGATACGCAAACAAGATGATAAATAGGCGACCTAGCTACACCGAAAAAAATCCCCTCACTATTGCGAGTAGTGAGGGGATTGGTGTATCTATGCTAATTCCTGTTAACTGTATTATAACAACTTTACAGCAAAAAAATGc             <  2:218807/141‑1 (MQ=255)                                                                                                        cTACGCAAACACGATGATAAATAGGCGACCTGGCTACACCGAAAAAACCCCCCTACTTGTTGCGAGTAGTGAGGGGATTGGTGTATCTATGCTAATTCCTGTTAACTGTATTATAACAACTTTACAGCAAAAAAATGCaaa          <  1:168626/141‑1 (MQ=255)                                                                                                        cTACGCAAACACGATGATAAATAGGCGACCTAGCTACACCGAAAAAAATCCCCTCACTATTGCGAGTCGTGAGGGGAATGGTCTACCTATGCTAATTCATGTTAACTGTATTATAACAACTTTATCGC‑ATAAAATGCaaaa         >  2:158515/1‑141 (MQ=255)                                                                                                        cTACGCAAACACGATGATAAATAGGCGACCTAGCTACACCGAAAAAAATCCCCTCACTATTGCGAGTAGTGAGGGGATTGGTGTATCTATGCTAATTCCTGTTAACTGTATTATAACAACTTTACAGCAAAAAAATGCaaa          <  1:66618/141‑1 (MQ=255)                                                                                                        cTACGCAAACACGATGATAAATAGGCGACCTAGCTACACCGAAAAAAATCCCCTCACTATTGCGAGTAGTGAGGGGATTGGTGTATCTATGCTAATTCCTGTTAACTGTATTATAACAACTTTACAGCAAAAAAATGCaaa          >  1:113984/1‑141 (MQ=255)                                                                                                        cTACGCAAACACGATGATAAATAGGCGACCTAGCTACACCGAAAAAAATCCCCTCACTATTGCGAGTAGTGAGGGGATTGGTGTATCTATGCTAATTCCTGTTAACTGTATTATAACAACTTTACAGCAAAAAAATGCaaa          <  2:269204/141‑1 (MQ=255)                                                                                                                acacGATGATAAATAGGCGACCTAGCTACACCGAAAAAAATCCCCTCACTATTGCGAGTAGTGAGAGGATTGGTGTATCTATGCTAATTCCTGTTAACTGTATTATAACAACTTTACAGCAAAAAAATGCAAAATCAACta  >  2:185576/1‑141 (MQ=255)                                                                                                                                      |                                                                                                                       TAGATATTTTGAAAATGTTAATGCATGATCGTTACTTAGACTAAAGACGACATTTGATGCATGTATCGTGCACTTATTTAGTGGTACTGTGTTTACGCATTGGCTACGCAAACACGATGATAAATAGGCGACCTAGCTACACCGAAAAAAATCCCCTCACTATTGCGAGTAGTGAGGGGATTGGTGTATCTATGCTAATTCCTGTTAACTGTATTATAACAACTTTACAGCAAAAAAATGCAAAATCAACTA  >  USA300TCH1516_ALE/2653351‑2653602

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ 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.