New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	3947039 =	84 (1.530)	6 (0.120)	5/246	NT	6.8%	intergenic (+7/+89)	trpT/hdfR	tRNA‑Trp/DNA‑binding transcriptional dual regulator HdfR
	?	NC_000913	3947061 =	86 (1.680)					intergenic (+29/+67)	trpT/hdfR	tRNA‑Trp/DNA‑binding transcriptional dual regulator HdfR

GCGATAAAAATGCGTTGATTCGCGATCTTTTGAAAATTAACGTGCTGGATGAAGTGTATTAATATGAATGGCTGGCAAGGATGCCGGTAGAAGGATTTACTTCGGAGAGGGTTATTTCAGATAAAAAAAATCCTTAGCTTTCGCTAAGGAT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/3947189‑3947039 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gctaaggatTTTTTTTATCTGAAATAACCCTCTCCGAAGTAAATCCTTCTACCGGCATCCTTGCCAGCCATTCATATTAATACACTTCATCCAGCACGTTAATTTTCAAAAGATCGCGAATCAACGCATTTTTATCGCTATTTTGCAGCCA  >  NC_000913/3947061‑3947202                                                                                                                                                                                                                                                                                                       GCGATAAAAATGCGTTGATTCGCGATCTTTTGAAAATTAACGTGCTGGATGAAGTGTATTAATATGAATGGCTGGCAAGGATGCCGGTAGAAGGATTTACTTCGGAGAGGGTTATTTCAGATAAAAAAAATCCTTAGCTTTCG                                                                                                                                                        <  1:560102/143‑1    ATAAAAATGCGTTGATTCGCGATCTTTTGAAAATTAACGTGCTGGATGAAGTGTATTAATATGAATGGCTGGCAAGGATGCCGGTAGAAGGATTTACTTCGGAGAGGGTTATTTCAGATAAAAAAAATCCTTAGCTTTCGCTA                                                                                                                                                     >  2:148627/1‑143      AAAAATGCGTTGATTCGCGATCTGTTGATGGTTCGCAACCTCGATGAAGTGTATTAATATGAATGGCTGGCAAGGATGCCGGTAGAAGGATTTACTTCGGAGAGGGTTATTTCAGATAAAAAAAATCCTTAGCTTTCGCTAAG                                                                                                                                                   <  2:465210/143‑1       AAAATGCGTTGATTCGCGATCTTTTGAAAATTAACGTGCTGGATGAAGTGTATTAATATGAATGGCTGGCAAGGATGCCGGTAGAAGGATTTCATTCGTAGAGGGTTATTTCAGATAAAAAAAATCCTTAGCTTTCGCTAAGG                                                                                                                                                  <  1:1010973/143‑1         AATGCGTTGATTCGCGATCTTTTGAAAATTAACGTGCTGGATGAAGTGTATTAATATGAATGGCTGGCAAGGATGCCGGTAGAAGGATTTACTTCGGAGAGGGTTAAAAAAAAAAAAAAAAATCCTTAGCTTTCGCTAAGGAT                                                                                                                                                <  2:4543/143‑1                                                                                                     TTCGGAGAGGGTTATTTCAGATAAAAAAAATCCTTAGCTTTCGCTAAGGATTTTTTTTATATGAAAAAACCCTCTCCGAAGTAAATCCTTCTACCGGCATCCTTGCCAGCCATTCATAATAATACACTTCCTCCCGCCCATTA                                                    >  2:297819/1‑143                                                                                                         GAGAGGGTTATTTCAGATAAAAAAAATCCTTAGCTTTCGCTAAGGATTTTTTTTATCTGAAATAACCCTCTCCGAAGTAAATCCTTCTACCGGCATCCTTGCCAGCCATTCATATTAATACACTTCATCCAGCACGTTAATTT                                                >  1:652755/1‑143                                                                                                         GAGAGGGTTATTTCAGATAAAAAAAATCCTTAGCTTTCGCTAAGGATTTTTTTTATCTGAAATAACCCTCTCCGAAGTAAATCCTTCTACCGGCATCCTTGCCAGCCATTCATATTAATACACTTCATCCAGCACGTTAATTT                                                >  1:652844/1‑143                                                                                                                        GATAAAAAAAATCCTTAGCTTTCGCTAAGGATTTTTTTTATCTGAAATAACCCTCTCCGAAGTAAATCCTTCTACCGGCATACTTGCCAGCCCTTCATATTAATACACTTCATCCACCACCCTAATCTTCACAAGATCGCGca                                 >  2:720730/1‑141                                                                                                                                   TCCTTAGCTTTCGCTAAGGATTTTTTTTATCTGAAATAACCCTCTCCGAAGTAAATCCTTCTACCGGCATCCTTGCCAGCCATTCATATTAATACACTTCACCCATCACGTTAATCTTCAAACGATAGCGAATCAACGCATct                      >  2:241813/1‑141                                                                                                                                     CTTAGCTTTCGCTAAGGATTTTTTTTATCTGAAATAACCCTCTCCGAAGTAAATCCTTCTACCGTCATCTTTGCCAGCCATTCATATTAATACACTTCATCCAGCACGTTAATTTTCAAAAGATCACGAATCAACGCATTTTT                    >  2:980565/1‑143                                                                                                                                                  AAGGATTTTTGTTATCTGAAATAACCCGCTCCGAAGTAAATCCTTCTACCGGCATCCTTGCCAGCCATTCATATTAATACACTTCATCCAGCACGTTAATTTTCAAACGCTCGCGAATCAACGCATTTTTATCGCTATTTTGC       <  2:645210/143‑1                                                                                                                                                  AAGGATCTTTTTTATCTGAAATAACCCTCTCCGAAGTACATCCTTCTACCGGCATCCGTGCCAGCCATTCATATTAATACACTTGATCCAGCACTTTAATTTTCAAAAGATCGCGAATCAACGCATTTTTATCGCTATTTTGC       <  2:525533/143‑1                                                                                                                                                   AGGATTTTTTTTATCTGAAATAACCCTCTCCGAAGGAAATCCTTCTAGCGGCATCCTTGCCAGCCATTCATATTAATACACTTCATCCAGCACGTTAATTTTCAAAAGATCGCGAATCAACGCATTTTTATCGCTATTTTGCA      <  1:964350/143‑1                                                                                                                                                    GGACTTTTTGCATCTGAAATAACCCTCTCCGAAGTAAATCCTTCTACCGGCATCCTTGCCAGCCATTCATATTAATACACTTCATCCAGCACGTTAATTTTCAAAAGATCGCGAATCAACGCATTTTTATCGCTATTTTGCAG     <  2:561953/143‑1                                                                                                                                                      ATTGTTGTTATCTGAAATAACCCTCTCCGAAGTAAATCCTTCTACCGGCATCCTTGCCAGCCATTCATATTAATACACTGCATCCAGCACGTTAATTTTCAAAAGATCGCGAATCAACGCATTTTTATCGCTATTTTGCAGCC   <  1:1047011/143‑1                                                                                                                                                       TTTTTTTTATCTGAAATAACCCTCTCCGAGGTAAATCCTTCTACGGGCATCCTTGCCAGCAATTCATATTAATACACTTCATCCAGCACGTTAATTTTCAAAAGATCGCGAATCAACGCATTTTTATCGCTATTTTGCAGCga  >  1:925663/1‑141                                                                                                                                                                                                                                                                                                       GCGATAAAAATGCGTTGATTCGCGATCTTTTGAAAATTAACGTGCTGGATGAAGTGTATTAATATGAATGGCTGGCAAGGATGCCGGTAGAAGGATTTACTTCGGAGAGGGTTATTTCAGATAAAAAAAATCCTTAGCTTTCGCTAAGGAT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/3947189‑3947039 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gctaaggatTTTTTTTATCTGAAATAACCCTCTCCGAAGTAAATCCTTCTACCGGCATCCTTGCCAGCCATTCATATTAATACACTTCATCCAGCACGTTAATTTTCAAAAGATCGCGAATCAACGCATTTTTATCGCTATTTTGCAGCCA  >  NC_000913/3947061‑3947202

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.