New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NZ_CP009273	3950787 =	44 (0.740)	4 (0.080)	3/144	3.6	9.5%	coding (394/894 nt)	ilvY	HTH‑type transcriptional activator IlvY
	?	NZ_CP009273	3950869 =	38 (0.730)					coding (312/894 nt)	ilvY	HTH‑type transcriptional activator IlvY
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

CCTACAGCCATCTGCCGCCGATTCTGGATCGCTTCCGCGCGGAACACCCGTCGGTGGAGATTAAACTTACTACTGGTGATGCGGCAGATG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NZ_CP009273/3950876‑3950787 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gcggcagatgGCTGTAGGCAGCGGTCACCGAGCAGAAGATATGTAATTCGCCAGAGAGCGACGGCCCTTGCTGATCGATGGTGTGGCGCAACTGCTGAT  >  NZ_CP009273/3950869‑3950957                                                                                                                                                                                     CCTACAGCCATCTGCCGCCGATTCTGGATCGCTTCCGCGCGGAACACCCGTCGGTGGAGATTAAACTTACTACTGGTGATGCGGCAGATG                                                                                           >  2:74417/1‑90          ATCTGCCGCCGATTCTGGATCGCTTCCGCGCGGAACACCCGTCGGTGGAGATTAAACTTACTACTGGTGATGCGGCAGAT                                                                                            <  1:1374380/80‑1          ATCTGCCGCCGATTCTGGATCGCTTCCGCGCGGAACACCCGTCGGTGGAGATTAAACTTACTACTGGTGATGCGGCAGAT                                                                                            >  2:1374380/1‑80                     ATTCTGGATCGGTTCCGCGCGGAACACCCGTCGGTGGAGATTAAACTTACTCCTGGTGATGCGGCAGATGGCTGTAGGCAGCGGTCACCG                                                                       <  2:214577/90‑1                     ATTCTGGATCGCTTCCGCGCGGAACACCCGTCGGTGGAGATTAAACTTACTACTGGTGATGCGGCAGATGGCTGTAGGCAGCGGTCACCG                                                                       <  1:416339/90‑1                                       GCGGAACCCCCGTCGGTGGAGATTAAACTTACTACTGGTGATGCGGCAGATGGCTGTAGGCAGCGGTCACCGAGCAGAAGATATGTAATT                                                     <  2:1652084/90‑1                                           AACACCCGTCGGTGGAGATTAAACTTACTACTGGTGATGCGGCAGATGGCTGTAGGCAGCGGTCACCGAGCAGAAGATATGTAATTCGCC                                                 <  1:384727/90‑1                                                                                     CAGATGGCTGTAGGCAGCGGTCACCGAGCAGAAGATATGTAATTCGCCAGAGAGCGACG                                      >  1:1377691/1‑59                                                                                     CAGATGGCTGTAGGCAGCGGTCACCGAGCAGAAGATATGTAATTCGCCAGAGAGCGACG                                      <  2:1377691/59‑1                                                                                          GGCTGTAGGCAGCGGTCACCGAGCAGAAGATATGTAATTCGCCAGAGAGCGACGGCCCTTGCTGATCGATGGTGTGGCGCAACTGCTGAT  <  1:693313/90‑1                                                                                                                                                                                     CCTACAGCCATCTGCCGCCGATTCTGGATCGCTTCCGCGCGGAACACCCGTCGGTGGAGATTAAACTTACTACTGGTGATGCGGCAGATG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NZ_CP009273/3950876‑3950787 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gcggcagatgGCTGTAGGCAGCGGTCACCGAGCAGAAGATATGTAATTCGCCAGAGAGCGACGGCCCTTGCTGATCGATGGTGTGGCGCAACTGCTGAT  >  NZ_CP009273/3950869‑3950957

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ 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.