New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 1997111	0 (0.000)	40 (0.450)	30/98	1.2	100%	coding (704/753 nt)	tcyN	cystine ABC transporter ATP binding subunit
	?	NC_000913	2023679 =	0 (0.000)					intergenic (+1/‑289)	fliR/rcsA	flagellar biosynthesis protein FliR/DNA‑binding transcriptional activator RcsA

TTTTTAATTTGCTGGCTGATATTATTAGTGAATTGCCATTAATATAATTCCGTAACGTTTATCATGTTATCCTAAGGATTATCCGAAAAATAATAC  >  NC_000913/2023632‑2023727                                                |                                                 ttgcagcagaaacttctcgaggaactggcgggtgcgaggctgctcggTTc                                                >  1:4060274‑M2/48‑50 (MQ=255)   gcagcagaaacttctcgaggaactggcgggtgcgaggctgctcggTTcc                                               <  1:871268‑M2/4‑1 (MQ=255)    cagcagaaacttctcgaggaactggcgggtgcgaggctgcccggTTCCg                                              >  1:2332531‑M2/45‑49 (MQ=255)       cagaaacttctcgaggaactggcgggcgcgaggccgctcggTTCCGGAAc                                          >  1:6318070‑M2/42‑50 (MQ=255)        agaaacttctcgaggaactggcgggtgcgaggctgctcggTTCCGTAACg                                         <  1:6346775‑M2/10‑1 (MQ=255)        agaaacttctcgaggaactggcgggtgcgaggctgctcggTTCCGTAACg                                         >  1:2480136‑M2/41‑50 (MQ=255)        agaaacttctcgaggaactggcgggtgcgaggctgctcggTTCCGTAACg                                         <  1:3417350‑M2/10‑1 (MQ=255)         gaaacttctcgaggaactggcgggtgcgaggctgctcggTTCCGTAACGt                                        <  1:6493128‑M2/11‑1 (MQ=255)           aacttctcgaggaactggcgggtgcgaggctgctcggTTCCGTAACGttt                                      <  1:2814480‑M2/13‑1 (MQ=255)           aacttctcgaggaactggcgggggcgcggctgctcggTTCCCTAACGttt                                      >  1:3376462‑M2/38‑50 (MQ=255)                   gaggaactggcgggtgcgaggctgctcggTTCCGTAACGTTTATCATg                                <  1:2228302‑M2/19‑1 (MQ=255)                   gaggaactggcgggtgcgaggctgctcggTTCCGTAACGTTTATCATg                                <  1:5897722‑M2/19‑1 (MQ=255)                   gaggaactggcgggtgcgaggctgctcggTTCCGTAACGTTTATCATGtt                              <  1:4321187‑M2/21‑1 (MQ=255)                   gaggaactggcgggtgcgaggctgctcggTTCCGTAACGTTTATCATGtt                              <  1:3531707‑M2/21‑1 (MQ=255)                     ggaactggcgggtgcgaggctgctcggTTCCGTAACGTTTATCATGTTAt                            <  1:3440703‑M2/23‑1 (MQ=255)                       aactggcgggtgcgaggctgctcggTTCCGTAACGTTTATCATGTTATcc                          >  1:1832077‑M2/26‑50 (MQ=255)                         ctggcgggtgcgaggctgctcggTTCCGTAACGTTTATCATGTTATCCTa                        <  1:321619‑M2/27‑1 (MQ=255)                              gggtgcgaggctgctcggTTCCGTAACGTTTATCATGTTATCCTAAGGAt                   >  1:1873997‑M2/19‑50 (MQ=255)                               ggtgcgaggctgctcggTTCCGTAACGTTTATCATGTTATCCTAAGGAtt                  <  1:622103‑M2/33‑1 (MQ=255)                               ggtgcgaggctgctcggTTCCGTAACGTTTATCATGTTATCCTAAGGAtt                  <  1:5048318‑M2/33‑1 (MQ=255)                                gtgcgaggctgctcggTTCCGTAACGTTTATCATGTTATCCTAAGGATTa                 <  1:5319186‑M2/34‑1 (MQ=255)                                  gcgaggctgctcggTTCCGTAACGTTTATCATGTTATCCTAAGGATTATc               >  1:1149002‑M2/15‑50 (MQ=255)                                   cgaggctgctcggTTCCGTAACGTTTATCATGTTATCCTAAGGATTATcc              <  1:265621‑M2/37‑1 (MQ=255)                                   cgaggctgctcggTTCCGTAACGTTTATCATGTTATCCTAAGGATTATc               <  1:6191177‑M2/36‑1 (MQ=255)                                     aggctgctcggTTCCGTAACGTTTATCATGTTATCCTAAGGATTATCCGa            <  1:5301358‑M2/39‑1 (MQ=255)                                      ggctgctcggTTCCGTAACGTTTATCATGTTATCCTAAGGATTATCCGa            >  1:3055859‑M2/11‑49 (MQ=255)                                      ggctgctcggTTCCGTAACGTTTATCATGTTATCCTAAGGATTATCCGa            >  1:6389009‑M2/11‑49 (MQ=255)                                         tgctcggTTCCGTAACGTTTATCATGTTATCCTAAGGATTATCCGaaaaa        >  1:1875434‑M2/8‑50 (MQ=255)                                          gctcggTTCCGTAACGTTTATCATGTTATCCTAAGGATTATCCGaaaaa        >  1:4994281‑M2/7‑49 (MQ=255)                                          gctcggTTCCGTAACGTTTATCATGTTATCCTAAGGATTATCCGaaaaa        >  1:1292002‑M2/7‑49 (MQ=255)                                          gctcggTTCCGTAACGTTTATCATGTTATCCTAAGGATTATCCGaaaaa        >  1:6628212‑M2/7‑49 (MQ=255)                                           ctcggTTCCGTAACGTTTATCATGTTATCCTAAGGATTATCCGaaaaa        <  1:455803‑M2/43‑1 (MQ=255)                                            tcggTTCCGTAACGTTTATCATGTTATCCTAAGGATTATCCGAAAaataa     >  1:4465853‑M2/5‑50 (MQ=255)                                             cggTTCCGTAACGTTTATCATGTTATCCTAAGGATTATCCGAAAaataa     >  1:3597082‑M2/4‑49 (MQ=255)                                              ggTTCCGTAACGTTTATCATGTTATCCTAAGGATTATCCGAAAAataata   >  1:5761685‑M2/3‑50 (MQ=255)                                               gTTCCGTAACGTTTATCATGTTATCCTAAGGATTATCCGAAAAATAATAc  >  1:5686599‑M2/2‑50 (MQ=255)                                               gTTCCGTAACGTTTATCATGTTATCCTAAGGATTATCCGAAAAATAATAc  <  1:1368661‑M2/49‑1 (MQ=255)                                               gTTCCGTAACGTTTATCATGTTATCCTAAGGATTATCCGAAAAATAATAc  >  1:791649‑M2/2‑50 (MQ=255)                                               gTTCCGTAACGTTTATCATGTTATCCTAAGGATTATCCGAAAAATAATAc  <  1:272940‑M2/49‑1 (MQ=255)                                               gTTCCGTAACGTTTATCATCTTATCCTAAGGATTATCCGAAAAATAATAc  <  1:2293883‑M2/49‑1 (MQ=255)                                                |                                                 TTTTTAATTTGCTGGCTGATATTATTAGTGAATTGCCATTAATATAATTCCGTAACGTTTATCATGTTATCCTAAGGATTATCCGAAAAATAATAC  >  NC_000913/2023632‑2023727

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ 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.