New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? REL606 1204666 =70 (0.680)9 (0.120) 4/36 NT 11.7% coding (481/1461 nt) phoQ sensory histidine kinase in two‑compoent regulatory system with PhoP
?REL606 3975303 = 83 (1.080)coding (677/801 nt) yigL predicted hydrolase

GAAGATGACGACGACGCGGAGATGACCCACTCGGTGGCGG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  REL606/1204705‑1204666
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑tggcggGGAAAGGCTGCATTATGGGCAGTGCGCACCAGCG  >  REL606/3975303‑3975336
                                                                          
GAAGATGACGACGACGCGGAGATGACCCACTCGGT                                         <  1:10289995/35‑1
GAAGATGACGACGACGCGGAGATGACCCACTCGGT                                         >  1:19754387/1‑35
GAAGATGACGACGACGCGGAGATGACCCACTCGGT                                         >  1:3303393/1‑35
 AAGATGACGACGACGCGGAGATGACCCACTCGGTG                                        <  1:5960926/35‑1
 AAGATGACGACGACGCGGAGATGACCCACTCGGTG                                        <  1:14870809/35‑1
 AAGATGACGACGACGCGGAGATGACCCACTCGGTG                                        <  1:11943604/35‑1
 AAGATGACGACGACGCGGAGATGACCCACTCGGTG                                        >  1:11210576/1‑35
 AAGATGACGACGACGCGGAGATGACCCACTCGGTG                                        >  1:10435886/1‑35
  AGATGACGACGACGCGGAGATGACCCACTCGGTGG                                       >  1:5653137/1‑35
   GATGACGACGACGCGGAGATGACCCACTCGGTGGC                                      >  1:7179878/1‑35
   GATGACGACGACGCGGAGATGACCCACTCGGTGGC                                      <  1:6177808/35‑1
    ATGACGACTACGCGGAGATGACCCACTCGGTGGCG                                     >  1:10324768/1‑35
    ATGACGACGACGCGGAGATGACCCACTCGGTGGCG                                     >  1:8980386/1‑35
    ATGACGACGACGCGGAGATGACCCACTCGGTGGCG                                     <  1:6915199/35‑1
     TGACGACGACGCTGAGATGACCCACTCGGTGGCGG                                    >  1:15491148/1‑35
     TGACGACGACGCGGAGATGACCCACTCGGTGGCGG                                    <  1:12373124/35‑1
     TGACGACGACGCGGAGATGACCCACTCGGTGGCGG                                    <  1:4270046/35‑1
     TGACGACGACGCGGAGATGACCCACTCGGTGGCGG                                    <  1:16365656/35‑1
      GACGACGACGCGGAGATGACCCACTNGGTGGCGGG                                   >  1:16418714/1‑35
      GACGACGACGCGGAGATGACCCACTCGGTGGCGGG                                   >  1:8281808/1‑35
      GACGACGACGCGGAGATGACCCACTCGGTGGCGGG                                   >  1:14993815/1‑35
      GACGACGACGCGGAGATGACCCACTCGGTGGCGGG                                   >  1:5747865/1‑35
      GACGACGACGCGGAGATGACCCACTCGGTGGCGGG                                   >  1:3151665/1‑35
         GACGACGCGGAGATGACCCACTCGGTGGCGGGGAA                                >  1:4223237/1‑35
         GACGACGCGGAGATGACCCACTCGGTGGCGGGGAA                                >  1:7663864/1‑35
         GACGACGCGGAGATGACCCACTCGGTGGCGGGCAA                                >  1:12006917/1‑35
          ACGACGCGGAGATGACCCACTCGGTGGCGGGGAAA                               >  1:19707923/1‑35
          ACGACGCGGAGATGACCCACTCGGTGGCGGGGAAA                               >  1:18888920/1‑35
           CGACGCGGAGATGACCCACTCGGTGGCGGGGAAcg                              >  1:10985356/1‑33
           CGACGCGGAGATGACCCACTCGGTGGCGGGGAAAG                              >  1:4835612/1‑35
            GACGCGGAGATGACCCACTCGGTGGCGGGGAAAGG                             >  1:2370003/1‑35
             ACGCGGAGATGACCCACTCGGTGGCGGGGAAAGtc                            >  1:19763980/1‑33
             ACGCGGAGATGACCCACTCGGTGGCGGGGAAAGGC                            >  1:6127730/1‑35
             ACGCGGAGATGACCCACTCGGTGGCGGGGAAAGGC                            >  1:14950423/1‑35
              CGCGGAGATGACCCACTCGGTGGCGGGGAAAGtac                           >  1:7814621/1‑32
              CGCGGAGATGACCCACTCGGTGGCGGGGAAAGTCT                           >  1:4942248/1‑35
              CGCGGAGATGACCCACTCGGTGGCGGGGAAAGGCT                           >  1:18593356/1‑35
                CGGAGATGACCCACTCGGTGGCGGGGAAAGGCTac                         >  1:16092821/1‑33
                                   GGCGGGGAAAGGCTGCATTATGGGCAGTGCGCACC      <  1:3411879/35‑1
                                   GGCGGGGAAAGGCTGCATTATGGGCAGGGCGCACC      >  1:6679585/1‑35
                                    GCGGGGAAAGGCTGCATTATGGGCAGTGCGCACCA     <  1:17803131/35‑1
                                    GCGGGGAAAGGCTGCATTATGGGCAGTGCGCACCA     <  1:2507790/35‑1
                                    GCGGGGAAAGGCTGCATTATGGGCAGTGCGCACCA     <  1:5235670/35‑1
                                    GCGGGGAAAGGCTGCATTATGGGCAGTGCGCACCA     <  1:18292087/35‑1
                                    GCGGGGAAAGGCTGCATTATGGGCAGGGCGCACCA     >  1:12720598/1‑35
                                     CGGGGAAAGGCTGCATTATGGGCAGTGGGCACCAG    >  1:1804263/1‑35
                                     CGGGGAAAGGCTGCATTATGGGCAGTGCGCACCAG    >  1:3327994/1‑35
                                     CGGGGAAAGGCTGCATTATGGGCAGTGCGCACCAG    <  1:10934193/35‑1
                                     CGGGGAAAGGCTGCATTATGGGCAGTGCGCACCAG    <  1:4943085/35‑1
                                     CGGGGAAAGGCTGCATTATGGGCAGGGCGCACCAG    >  1:16935372/1‑35
                                     CGGGGAAAGGCTGCATTATGGGCAGGGCGCACCAG    >  1:15502400/1‑35
                                      GGGGAAAGGCTGCATTATGGGCAGTGCGCACCAGC   >  1:13849343/1‑35
                                      GGGGAAAGGCTGCATTATGGGCAGTGCGCACCAGC   <  1:19891746/35‑1
                                      GGGGAAAGGCTGCATTATGGGCAGTGCGCACCAGC   <  1:15441257/35‑1
                                      GGGGAAAGGCTGCATTATGGGCAGTGCGCACCAGC   >  1:16020055/1‑35
                                       GGGAAAGGCTGCATTATGGGCAGTGCGCACCCGCG  >  1:11220249/1‑35
                                       GGGAAAGGCTGCATTATGGGCAGTGCGCACCAGCG  <  1:14548721/35‑1
                                       GGGAAAGGCTGCATTATGGGCAGTGCGCACCAGCG  <  1:20255355/35‑1
                                       GGGAAAGGCTGCATTATGGGCAGTGCGCACCAGCG  <  1:9999214/35‑1
                                                                          
GAAGATGACGACGACGCGGAGATGACCCACTCGGTGGCGG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  REL606/1204705‑1204666
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑tggcggGGAAAGGCTGCATTATGGGCAGTGCGCACCAGCG  >  REL606/3975303‑3975336

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 31 ≤ 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.