New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	USA300TCH1516_ALE	= 2870578	55 (0.940)	4 (0.070)	4/248	NT	7.0%	intergenic (‑46/+21)	mnmG/mnmE	tRNA uridine 5‑carboxymethylaminomethyl modification enzyme MnmG/tRNA modification GTPase MnmE
	?	USA300TCH1516_ALE	= 2870582	54 (0.970)					intergenic (‑50/+17)	mnmG/mnmE	tRNA uridine 5‑carboxymethylaminomethyl modification enzyme MnmG/tRNA modification GTPase MnmE

CATTAATGTTTTAGCACCACGTCTTGCAGATGCTAAACCTGCTTCTACACCTGCATGTCCCGCACCTATAACGATTACATCATATTCTTGAACCACAATATAAACCTCCTTATTTGATATCTTACTAGCCTTCTTAAGACGG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  USA300TCH1516_ALE/2870437‑2870578 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑agacggAATACCGTCTTAAGAAGGCTAGTAAGATATCAAATAAGGAGGTTTATATTGTGGTTCAAGAATATGATGTAATCGTTATAGGTGCGGGACATGCAGGTGTAGAAGCAGGTTTAGCATCTGCAAGACGTGGTGCTAAA  <  USA300TCH1516_ALE/2870582‑2870446                                                                                                                                                                                                                                                                                         CATTAATGTTTTAGCACCACGTCTTGCAGATGCTAAACCTGCTTCTACACCTGCATGTCCCGCACCTATAACGATTACATCATATTCTTGAACCACAATATAAACCTCCTTATTTGATATCTTACTAGCCTTCTTAAGACG                                                                                                                                            <  2:568849/141‑1  ATTAATGTTTTAGCACCACGTCTTGCAGATGCTAAACCTGCTTCTACCCCTGCATGTCCCGCACCTATAACGATTACATCATATTCTTGAACCACAATATAAACCTCCTTATTTGATATCTTACTAGCCTTCTTAAGACGG                                                                                                                                           <  1:552411/141‑1  ATTAATGTTTTAGCACCACGTCTTGCAGATGCTAAACCTGCTTCTACACCTGCATGTCCCGCACCTATAACGATTACATCATATTCTTGAACCACAATATAAACCTCCTTATTTGATATCTTACTAGCCTTCTTAAGACGG                                                                                                                                           <  1:598862/141‑1       TGTTTTAGCACCACGTCTTGCAGATGCTAAACCTGCTTCTACACCTGCATGTCCCGCACCTATAACGATTACATCATATTCTTGAACCACAATATAAACCTCCTTATTTGATATCTTACTAGCCTTCTTAAGACGGAATAC                                                                                                                                      <  2:608733/141‑1                                                       ATGTCCCGCACCTATAACGATTACATCATATTCTCGAACCACAATATAAACCTCCTACTTTGATCTCTTACTATCCTTCTTAAGACGGAATTCCGTCTTAAGAAGGCTAGTAGGAAATCAAACAAAGAGGTTTAAACTGTG                                                                                      >  1:613301/1‑141                                                                ACCTATAACGATTACATCATATTCTTGGACCCCAATATAAACCTCCTTATTTGATATCTTACTAGACTTCTTAATCCGGAATACCGTCTTAAGAAGGATAGTAGGTTATCACATAAGGAGGATTATAACGTGGTTCAACAA                                                                             >  2:216942/1‑141                                                                ACCTATAACGATTACATCATATTCTTGAACCACAATATAAACCTCCTTATTTGATATCTTACTAGCCTTCTTAAGACGGTATTCCGTCTTAAGAAGTCTAGTAAGATATCAAATACGGAGGTTTAGATTATGGTTCAAGAA                                                                             >  1:551414/1‑141                                                                                              CACAATATAAACCTCCTTATTTGATATCTTACTAGCCTTCTTAAGACGGTATTCCGTCTTAAGAAGGCTAGTAAGATATCAAATAAGGAGGTTTATATTGTGGTTCAAGAATATGATGTAATCGTTATAGGTGCGGGACAT                                               <  2:613301/141‑1                                                                                                                                    gaacatGACGGAATACCGTCTGAAGAAGGCTAGTAAGATATCAAATAAGGAGGGTTATATTGTGGTTCAAGAATATGATGTAATCGTTATAGGTGCGGGACATGCAGGTGTAGAAGCAGGTTTAGCATCTGCAAGACGTGG         <  1:266363/135‑1                                                                                                                                           cCGGAATACCGTCTTAAGAAGGCTAGTAAGATATCAAATAAGGAGGTTTATATTGTGGTTCAAGAATATGATGTAATCGTTATAGGTGCGGGACATGCAGGTGTAGAAGCAGGTTTAGCATCTGCAAGACGTGGTGCTAAA  <  1:390895/140‑1                                                                                                                                           ACGGAATACCGTCTTAAGAAGGCTAGTAAGATATCAAATAAGGAGGTTTATATTGTGGTTCAAGAATATGATGTAATCGTTATAGGTGCGGGACATGCAGGTGTAGAAGCAGGTTTAGCATCTGCAAGACGTGGTGCTAAA  <  1:10587/141‑1                                                                                                                                                                                                                                                                                         CATTAATGTTTTAGCACCACGTCTTGCAGATGCTAAACCTGCTTCTACACCTGCATGTCCCGCACCTATAACGATTACATCATATTCTTGAACCACAATATAAACCTCCTTATTTGATATCTTACTAGCCTTCTTAAGACGG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  USA300TCH1516_ALE/2870437‑2870578 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑agacggAATACCGTCTTAAGAAGGCTAGTAAGATATCAAATAAGGAGGTTTATATTGTGGTTCAAGAATATGATGTAATCGTTATAGGTGCGGGACATGCAGGTGTAGAAGCAGGTTTAGCATCTGCAAGACGTGGTGCTAAA  <  USA300TCH1516_ALE/2870582‑2870446

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 27 ≤ 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.