New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	USA300TCH1516_ALE	= 1371846	71 (0.720)	7 (0.080)	5/142	NT	9.2%	coding (1376/1989 nt)	tkt	Transketolase
	?	USA300TCH1516_ALE	= 1371866	75 (0.860)					coding (1396/1989 nt)	tkt	Transketolase

ACATCCATATGGTGCAACATTCTTCGTATTTAGTGATTATTTAAAACCAGCGTTACGTTTATCATCAATTATGGGATTAAATGCAACGTTCATCTTCAC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  USA300TCH1516_ALE/1371748‑1371846 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑catcttcacCTACTGCAATTGAATCATGTGTGAAGATGAACGTTGCATTTAATCCCATAATTGATGATAAACGTAACGCTGGTTTTAAATAATCACTAA  <  USA300TCH1516_ALE/1371866‑1371777                                                                                                                                                                                               ACATCCATATGGTGCAACATTCTTCGTATTTAGTGATTATTTAAAACCAGCGTTACGTTTATCATCAATTATGGGATTAAATGCAACGTTC                                                                                                    >  1:2905426/1‑91  CATCCATATGGTGCAACATTCTTCGTATTTAGTGATTATTTAAAACCAGCGTTACGTTTATCATCAATTATGGGATTAAATGCAACGTTCA                                                                                                   <  1:1941041/91‑1  CATCCATATGGTGCAACATTCTTCGTATTTAGTGATTATTTAAAACCAGCGTTACGTTTATCATCAATTATGGGATTAAATGCAACGTTCA                                                                                                   <  1:1941146/91‑1    TCCATATGGTGCAACATTCTTCGTATTTAGTGATTATTTAAAACCAGCGTTACGTTTATCATCAATTATGGGATTAAATGCAACGTTCATC                                                                                                 >  1:1787971/1‑91    TCCATATGGTGCAACATTCTTCGTATTTAGTGATTATTTAAAACCAGCGTTACGTTTATCATCAATTATGGGATTAAATGCAACGTTCATC                                                                                                 <  1:3461923/91‑1    TCCATATGGTGCAACATTCTTCGTATTTAGTGATTATTTAAAACCAGCGTTACGTTTATCATCAATTATGGGATTAAATGCAACGTTCATC                                                                                                 >  1:2193632/1‑91      CATATGGTGCAACATTCTTCGTATTTAGTGATTATTTAAAACCAGCGTTACGTTTATCATCAATTATGGGATTAAATGCAACGTTCATCTT                                                                                               >  1:2655128/1‑91       ATATGGTGCAACATTCTTCGTATTTAGTGATTATTTAAAACCAGCGTTACGTTTATCATCAATTATGGGATTAAATGCAACGTTCATCTTC                                                                                              <  1:1213188/91‑1        TATGGTGCAACATTCTTCGTATTTAGTGATTATTTAAAACCAGCGTTACGTTTATCATCAATTATGGGATTAAATGCAACGTTCATCTTCA                                                                                             <  1:1273107/91‑1         ATGGTGCAACATTCTTCGTATTTAGTGATTATTTAAAACCAGCGTTACGTTTATCATCAATTATGGGATTAAATGCAACGTTCATCTTCAC                                                                                            <  1:3779158/91‑1         ATGGTGCAACATTCTTCGTATTTAGTGATTATTTAAAACCAGCGTTACGTTTATCATCAATTATGGGATTAAATGCAACGTTCATCTTCAC                                                                                            >  1:2585828/1‑91                    TTCTTCGTATTTAGTGATTATTTAAAACCAGCGTTACGTTTATCATCAATTATGGGATTAAATGCAACGTTCATCTTCACCTACTGCAATT                                                                                 <  1:1816511/91‑1                            ATTTAGTGATTATTTAAAACCAGCGTTACGTTTATCATCAATTATGGGATTAATTGCAACGTTCATCTTCACCTACTGCAATTGAATCATG                                                                         <  1:3502833/91‑1                              TTAGTGATTATTTAAAACCAGCGTTACGTTTATCATCAATTATGGGATTAAATGCAACGTTCATCTTCACCTACTGCAATTGAATCATGTG                                                                       <  1:1028793/91‑1                              TTAGTGATTATTTAAAACCAGCGTTACGTTTATCATCAATTATGGGATTAAATGCAACGTTCATCTTCACCTACTGCAATTGAATCATGTG                                                                       <  1:2663838/91‑1                              TTAGTGATTATTTAAAACCAGCGTTACGTTTATCATCAATTATGGGATTAAATGCAACGTTCATCTTCACCTACTGCAATTGAATCATGTG                                                                       <  1:1028163/91‑1                                AGTGATTATTTAAAACCAGCGTTACGTTTATCATCAATTATGGGATTAAATGCAACGTTCATCTTCACCTACTGCAATTGAATCATGTGTG                                                                     <  1:2205839/91‑1                                  TGATTATTTAAAACCAGCGTTACGTTTATCATCAATTATGGGATTAAATGCAACGTTCATCTTCACCTACTGCAATTGAATCATGTGTGAA                                                                   <  1:2045261/91‑1                                                                                           CATCTTCACCTACTGCAATTGAATCATGTGTGAAGATGAACGTTGCATTTAATCCCATAATTGATGATAAACGTAACGCTGGTTTTAAATA          <  1:2924314/91‑1                                                                                           CATCTTCACCTACTGCAATTGAATCATGTGTGAAGATGAACGTTGCATTTAATCCCATAATTGATGATAAACGTAACGCTGGTTTTAAATA          >  1:425770/1‑91                                                                                            ATCTTCACCTACTGCAATTGAATCATGTGTGAAGATGAACGTTGCATTTAATCCCATAATTGATGATAAACGTAACGCTGGTTTTAAATAA         <  1:1837571/91‑1                                                                                            ATCTTCACCTACTGCAATTGAATCATGTGTGAAGATGAACGTTGCATTTAATCCCATAATTGATGATAAACGTAACGCTGGTTTTAAATAA         <  1:502723/91‑1                                                                                            ATCTTCACCTACTGCAATTGAATCATGTGTGAAGATGAACGTTGCATTTAATCCCATAATTGATGATAAACGTAACGCTGGTTTTAAATAA         <  1:502924/91‑1                                                                                            ATCTTCACCTACTGCAATTGAATCATGTGTGAAGATGAACGTTGCATTTAATCCCATAATTGATGATAAACGTAACGCTGGTTTTAAATAA         <  1:502937/91‑1                                                                                             TCTTCACCTACTGCAATTGAATCATGTGTGAAGATGAACGTTGCATTTAATCCCATAATTGATGATAAACGTAACGCTGGTTTTAAATAAT        <  1:2415558/91‑1                                                                                                TCACCTACTGCAATTGAATCATGTGTGAAGATGAACGTTGCATTTAATCCCATAATTGATGATAAACGTAACGCTGGTTTTAAATAATCAC     <  1:2475979/91‑1                                                                                                TCACCTACTGCAATTGAATCATGTGTGAAGATGAACGTTGCATTTAATCCCATAATTGATGATAAACGTAACGCTGGTTTTAAATAATCAC     <  1:945547/91‑1                                                                                                 CACCTACTGCAATTGAATCATGTGTGAAGATGAACGTTGCATTTAATCCCATAATTGATGATAAACGTAACGCTGGTTTTAAATAATCACT    <  1:3625485/91‑1                                                                                                  ACCTACTGCAATTGAATCATGTGTGAAGATGAACGTTGCATTTAATCCCATAATTGATGATAAACGTAACGCTGGTTTTAAATAATCACTA   <  1:2668217/91‑1                                                                                                   CCTACTGCAATTGAATCATGTGTGAAGATGAACGTTGCATTTAATCCCATAATTGATGATAAACGTAACGCTGGTTTTAAATAATCACTAA  >  1:1273701/1‑91                                                                                                   CCTACTGCAATTGAATCATGTGTGAAGATGAACGTTGCATTTAATCCCATAATTGATGATAAACGTAACGCTGGTTTTAAATAATCACTAA  <  1:714309/91‑1                                                                                                                                                                                               ACATCCATATGGTGCAACATTCTTCGTATTTAGTGATTATTTAAAACCAGCGTTACGTTTATCATCAATTATGGGATTAAATGCAACGTTCATCTTCAC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  USA300TCH1516_ALE/1371748‑1371846 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑catcttcacCTACTGCAATTGAATCATGTGTGAAGATGAACGTTGCATTTAATCCCATAATTGATGATAAACGTAACGCTGGTTTTAAATAATCACTAA  <  USA300TCH1516_ALE/1371866‑1371777

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