New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? REL606 1590579 =43 (0.420)11 (0.140) 3/38 NT 20.2% intergenic (+294/+147) ydeE/ydeH predicted transporter/hypothetical protein
?REL606 = 3487475 53 (0.650)coding (608/1599 nt) rtcR sigma 54‑dependent transcriptional regulator of rtcBA expression

GGCGGTTTTTTTTCGCC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  REL606/1590595‑1590579
‑‑‑‑‑‑‑‑‑‑‑‑tcgccACTTTTTCGATCTGCTCAATCATGCGGTTGAAGT  <  REL606/3487475‑3487442
                                                   
gggGGTTTTTTTTCGCCACTTTTTCGATCTGCTCA                  <  1:5680333/32‑1
cgtGGTTTTTTTTCGCCACTTTTTCGATCTGCTCA                  <  1:11552360/32‑1
cGCGGTTTTTGTTCGCCACTTTTTCGATCTGCTCA                  <  1:5325702/34‑1
 GCGGTGTTTTTTCGCCACTTTTTCGATCTGCTCAA                 <  1:8406154/35‑1
  gGGTTTTTGTTCGCCACTTTTTCGATCTGCTCAAT                <  1:2894254/34‑1
   gggTTTTTTTCGCCACTTTTTCGATCTGCTCAATC               <  1:11442122/32‑1
    gtaTTTTTTCGCCACTTTTTCGATCTGCTCAATCA              <  1:17610558/32‑1
    GTTTTTTTTAGCCACTTTTTCGATCTGCTCAATCA              <  1:16179311/35‑1
    GTTTTTGTTCGCCACTTTTTCGATCTGCTCAATCA              <  1:13906628/35‑1
      TTTTTTTCGCCACTTTTTCGATCTGCTCAATCATG            <  1:13633383/35‑1
      TTTTTATCGCCACTTTTTCGATCTGCTCAATCATG            <  1:18850492/35‑1
      TTTTGTTCGCCACTTTTTCGATCTGCTCAATCATG            <  1:15339911/35‑1
       TTTTTTCGCCACTTTTTCGATCTGCTCAATCATGC           <  1:5027353/35‑1
       TTTTTTCGCCACTTTTTCGATCTGCTCAATCATGC           <  1:8572953/35‑1
       TTTGTTCGCCACTTTTTCGATCTGCTCAATCATGC           <  1:14658524/35‑1
       TTTGTTCGCCACTTTTTCGATCTGCTCAATCATGC           <  1:10020831/35‑1
        ttgTTCGCCACTTTTTCGATCTGCTCAATCATGCG          <  1:7585344/32‑1
          gTTCGCCACTTTTTCGATCTGCTCAATCATGCGGT        <  1:12537832/34‑1
          TTTCGCCACTTTTTCGATCTGCTCAATCATGCGGT        <  1:16137520/35‑1
           TTCGCCACTTTTTCGATCTGCTCAATCATGCGGTT       <  1:18750840/35‑1
           TTCGCCACTTTTTCGATCTGCTCAATCATGCGGTT       <  1:17631285/35‑1
           TTCGCCACTTTTTCGATCTGCTCAATCATGCGGTT       <  1:11538492/35‑1
           TTCGCCACTTTTTCGATCTGCTCAATAATGCGGTT       <  1:13152973/35‑1
            TCGCCACTTTTTCGATCTGCTCAATCATGCGGTTG      <  1:9537884/35‑1
            TCGCCACTTTTTCGATCTGCTCAATCATGCGGTTG      <  1:10459502/35‑1
            TCGCCACTTTTTCGATCTGCTCAATCATGCGGTTG      >  1:13062326/1‑35
             CGCCACTTTTTCGATCTGCTCAATCATGCGGTTGA     >  1:4239889/1‑35
             CGCCACTTTTTCGATCTGCTCAATCATGCGGTTGA     >  1:6572698/1‑35
             CGCCACTTTTTCGATCTGCTCAATCATGCGGTTGA     >  1:19985045/1‑35
              GCCACTTTTTCGATCTGCTCAATCATGCGGTTGAA    >  1:12327083/1‑35
              GCCACTTTTTCGATCTGCTCAATCATGCGGTTGAA    >  1:10616647/1‑35
              GCCACTTTTTCGATCTGCTCAATCATGCGGTTGAA    <  1:10278498/35‑1
               CCACTTTTTCGATCTGCTCAATCATGCGGTTGAAG   <  1:19016883/35‑1
                CACTTTTTCGATCTGCTCAATCATGCGGTTGAAGT  <  1:20612514/35‑1
                CACTTTTTCGATCTGCTCAATCATGCGGTTGAAGT  <  1:20521425/35‑1
                CACTTTTTCGATCTGCTCAATCATGCGGTTGAAGT  >  1:6410432/1‑35
                                                   
GGCGGTTTTTTTTCGCC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  REL606/1590595‑1590579
‑‑‑‑‑‑‑‑‑‑‑‑tcgccACTTTTTCGATCTGCTCAATCATGCGGTTGAAGT  <  REL606/3487475‑3487442

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ 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.