Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
JC	NZ_CP009273	1,613,496	(CTGGATATTACCGCG)1→2	coding (120/435 nt)	marR →	multiple antibiotic resistance transcriptional regulator MarR

New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NZ_CP009273	1613480 =	1 (0.080)	12 (0.950)	9/164	0.3	89.0%	coding (104/435 nt)	marR	multiple antibiotic resistance transcriptional regulator MarR
	?	NZ_CP009273	= 1613494	2 (0.160)					coding (118/435 nt)	marR	multiple antibiotic resistance transcriptional regulator MarR

GCGCAGCGGATAGAGCAGAGCACCTTAAACTGTGCCGCGGTAATATCCAGCG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NZ_CP009273/1613531‑1613480 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑cgCGGTAATATCCAGCGGAGACAGATACTCGTTAAGCAGGCGATCTTTCTTCTGATTAACCATATGGATTAA  <  NZ_CP009273/1613494‑1613425                                                                                                                            GCGCAGCGGATAGAGCAGAGCACCTTAAACTGTGCCGCGGTAATATCCAGCGCGGTAATATCCAGCGGAGACAGATACTCGTTAAGCAGG                                  >  2:140853/1‑90 GCGCAGCGGATAGAGCAGAGCACCTTAAACTGTGCCGCGGTAATATCCAGCGCGGTAATATCCAGCGGAGACAGATACTCGTTAAGCAGG                                  >  2:259952/1‑90 GCGCAGCGGATAGAGCAGAGCACCTTAAACTGTGCCGCGGTAATATCCAGC                                                                         <  1:276958/51‑1 GCGCAGCGGATAGAGCAGAGCACCTTAAACTGTGCCGCGGTAATATCCAGC                                                                         >  2:276958/1‑51                  GAGCACCTTAAACTGTGCCGCGGTAATATCCAGCGCGGTAATATCCAGCGGAGACAGATACTCGTTAAGCAGGCGATCTTTCTTCTGATT                 >  2:296276/1‑90                  GAGCACCTTAAACTGTGCCGCGGTAATATCCAGCGCGGTAATATCCAGCGGAGACAGATACTCGTTAAGCAGGCGATCTTTCTTCTGATT                 >  2:341686/1‑90                   AGCACCTTAAACTGTGCCGCGGTAATATCCAGCGCGGTAATATCCAGCGGAGACAGATACTCGTTAAGCAGGCGATCTTTCTTCTGATTA                <  1:146122/90‑1                        CTTAAACTGTGCCGCGGTAATATCCAGCGCGGTAATATCCAGCGGAGACAGATACTCGTTAAGCAGGCGATCTTTCTTCTGATTAACCAT           <  1:139193/90‑1                         TTAAACTGTGCCGCGGTAATATCCAGCGCGGTAATATCCAGCGGAGACAGATACTCGTTAAGCAGGCGATCTTTCTTCTGATTAACCGTA          <  2:343627/90‑1                              CTGTGCCGCGGTAATATCCAGCGCGGTAATATCCAGCGGAGACAGATACTCGTTAAGCAGGCGATCTTTCTTCTGATTAACCATATGGAT     <  2:188080/90‑1                                GTGCCGCGGTAATATCCAGCGCGGTAATATCCAGCGGAGACAGATACTCGTTAAGCAGGCGATCTTTCTTCTGATTAACCATATGGATTA   >  2:111411/1‑90                                GTGCCGCGGTAATATCCAGCGCGGTAATATCCAGCGGAGACAGATACTCGTTAAGCAGGCGATCTTTCTTC                      <  1:49669/71‑1                                GTGCCGCGGTAATATCCAGCGCGGTAATATCCAGCGGAGACAGATACTCGTTAAGCAGGCGATCTTTCTTC                      >  2:49669/1‑71                                 TGCCGCGGTAGTATCCAGCGCGGTAATATCCAGCGGAGACAGATACTCGTTAAGCAGGCGATCTTTCTTCTGATTAACCATATGGATTAA  >  1:324578/1‑90                                                                                                                            GCGCAGCGGATAGAGCAGAGCACCTTAAACTGTGCCGCGGTAATATCCAGCG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NZ_CP009273/1613531‑1613480 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑cgCGGTAATATCCAGCGGAGACAGATACTCGTTAAGCAGGCGATCTTTCTTCTGATTAACCATATGGATTAA  <  NZ_CP009273/1613494‑1613425

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 34 ≤ 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.