New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? REL606 601491 =81 (0.790)7 (0.100) 3/34 NT 10.1% coding (530/1134 nt) fepE regulator of length of O‑antigen component of lipopolysaccharide chains
?REL606 2785963 = 67 (0.920)coding (408/1338 nt) ygcS predicted transporter

CCCGCTCAAAACGGTCTGCGCCTCTTCACTGGTTGGCGCGG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  REL606/601531‑601491
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ggcgcggGGAAAATTCAGCCAGCAAGGTGTGACCTACTGAA  >  REL606/2785963‑2785996
                                                                           
CCCGCTCAAAACGGTCTGCGCCTCTTCACTGGTTG                                          <  1:14655434/35‑1
CCCGCTCAAAACGGTCTGCGCCTCTTCACTGGTTG                                          <  1:17108065/35‑1
CCCGCTCAAAACGGTCTGCGCCTCTTCACTGGTTG                                          >  1:4299432/1‑35
CCCGCTCAAAACGGTCTGCGCCTCTTCACTGGTTG                                          >  1:12664126/1‑35
 CCGCTCAAAACGGTCTGCGCCTCTTCACTGGTTGG                                         <  1:7300565/35‑1
 CCGCTCAAAACGGTCTGCGCCTCTTCACTGGTTGG                                         <  1:19721938/35‑1
  CGCTCAAAACGGTCTGCGCCTCTTCACTGGTTGGC                                        >  1:1659334/1‑35
  CGCTCAAAACGGTCTGCGCCTCTTCACTGGTTGGC                                        >  1:17514390/1‑35
  CGCTCAAAACGGTCTGCGCCTCTTCACTGGTTGGC                                        >  1:7592675/1‑35
  CGCTCAAAACGGTCTGCGCCTCTTCACTGGTTGGC                                        <  1:1296742/35‑1
  CGCTCAAAACGGTCTGCGCCTCTTCACTGGTTGGC                                        <  1:12766919/35‑1
   GCTCAAAACGGTCTGCTCCTCTTCACTGGTTGGCG                                       >  1:2104029/1‑35
   GCTCAAAACGGTCTGCGCCTCTTCACTGGTTGGCG                                       >  1:1354797/1‑35
   GCTCAAAACGGTCTGCGCCTCTTCACTGGTTGGCG                                       <  1:6816779/35‑1
   GCTCAAAACGGTCTGCGCCTCTTCACTGGTTGGCG                                       >  1:2586534/1‑35
    CTCAAAACGGTCTGCGCCTCTTCACTGGTTTGCGC                                      >  1:10082866/1‑35
    CTCAAAACGGTCTGCGCCTCTTCACTGGTTGGCGC                                      <  1:11853041/35‑1
    CTCAAAACGGTCTGCGCCTCTTCACTGGTTGGCGC                                      <  1:4807536/35‑1
    CTCAAAACGGTCTGCGCCTCTTCACTGGTTGGCGC                                      >  1:7969289/1‑35
    CTCAAAACGGTCTGCGCCTCTTCACTGGTTGGCGC                                      <  1:9381485/35‑1
     TCAAAACGGTCTGCGCCTCTTCACTGGTTGGCGCG                                     <  1:8784008/35‑1
     TCAAAACGGTCTGCGCCTCTTCACTGGTTGGCGCG                                     <  1:9641285/35‑1
     TCAAAACGGTCTGCGCCTCTTCACTGGTTGGCGCG                                     >  1:15303534/1‑35
     TCAAAACGGTCTGCGCCTCTTCACTGGTTGGCGCG                                     <  1:13781687/35‑1
      CAAAACGGTCTGCGCCTCTTCACTGGTTGGCGCGG                                    <  1:20052372/35‑1
       AAAACGGTCTGCGCCTCTTCACTGGTTGGCGCGGG                                   >  1:19300923/1‑35
       AAAACGGTCTGCGCCTCTTCACTGGTTGGCGCGGG                                   >  1:17256023/1‑35
       AAAACGGTCTGCGCCTCTTCACTGGTTGGCGCGGG                                   >  1:3839043/1‑35
       AAAACGGTCTGCGCCTCTTCACTGGTTGGCGCGGG                                   >  1:8058793/1‑35
        AAACGGTCTGCGCCTCTTCACTGGTTGGCGCGGGG                                  >  1:12210413/1‑35
         AACGGTCTGCGCCTCTTCACTGGTTGGGGCGGGGA                                 >  1:16839460/1‑35
         AACGGTCTGCGCCTCTTCACTGGTTGGCGGGGGGA                                 >  1:20281262/1‑35
         AACGGTCTGCGCCTCTTCACTGGTTGGCGCGGcaa                                 >  1:11484335/1‑32
         AACGGTCTGCGCCTCTTCACTGGTTGGCGCGGGaa                                 >  1:18479572/1‑33
           CGGTCTGCTCCTCTTCACTGGTTGGCGCGGGGAAA                               >  1:7594880/1‑35
           CGGTCTGCGCCTCTTCACTGGTTGGCGCGGGGAAA                               >  1:1372307/1‑35
           CGGTCTGCGCCTCTTCACTGGTTGGCGCGGGGAAA                               >  1:6371232/1‑35
            GGTCTGCGCCTCTTCACTGGTTGGCGCGGGGAAAc                              >  1:6283868/1‑34
            GGTCTGCGCCTCTTCACTGGTTGGCGCGGGGAAAA                              >  1:11089695/1‑35
             GTCTGCGCCTCTTCACTGGTTGGCGCGGGGAAAAT                             >  1:7620071/1‑35
             GTCTGCGCCTCTTCACTGGTTGGCGCGGGGAAAAT                             >  1:5311233/1‑35
             GTCTGCGCCTCTTCACTGGTTGGCGCGGGAAAAAa                             >  1:2867617/1‑34
              TCTGCGCCTCTTCACTGGTTGGCGCGGGGAAAATT                            >  1:8983690/1‑35
               CTGCGCCTCTTCACTGGTTGGCGCGGGAAAAATTa                           >  1:17296631/1‑34
                 GCGCCTCTTCACTGGTTGGCGCGGGGAAAATTatc                         >  1:12868710/1‑32
                                  GGCGCGGGGAAAATTCAGCCAGCAAGGTGTGACCT        >  1:11440918/1‑35
                                  GGCGCGGGGAAAATTCAGCCAGCAAGGTGTGACCT        <  1:2060017/35‑1
                                  GGCGCGGGGAAAATTCAGCCAGCAAGGTGTGACCT        <  1:11478756/35‑1
                                  GGCGCGGGGAAAATTCAGCCAGCAAGGTGTGACCT        >  1:1798062/1‑35
                                  GGCGCGGGGAAAATTCAGCCAGCAAGGTGTGACCT        >  1:17771996/1‑35
                                   GCGCGGGGAAAATTCAGCCAGCAAGGTGTGACCTA       <  1:6165851/35‑1
                                   GCGCGGGGAAAATTCAGCCAGCAAGGTGTGACCTA       <  1:5526570/35‑1
                                   GCGCGGGGAAAATTCAGCCAGCAAGGTGTGACCTA       <  1:17568662/35‑1
                                   GCGCGGGGAAAATTCAGCCAGCAAGGTGTGACCTA       >  1:10781198/1‑35
                                    CGCGGGGAAAATTCAGCCAGCAAGGTGTGACCTAC      >  1:19686490/1‑35
                                    CGCGGGGAAAATTCAGCCAGCAAGGTGTGACCTAC      <  1:16313155/35‑1
                                    CGCGGGGAAAATTCAGCCAGCAAGGTGTGACCTAC      <  1:15001560/35‑1
                                     GCGGGGANAATTCAGCCAGCAAGGTGTGACCTACT     >  1:17347706/1‑35
                                     GCGGGGAAAATTCAGCCAGCAAGGTGTGACCTACT     <  1:12483626/35‑1
                                     GCGGGGAAAATTCAGCCAGCAAGGTGTGACCTACT     >  1:11112827/1‑35
                                     GCGGGGAAAATTCAGCCAGCAAGGTGTGACCTACT     >  1:19578397/1‑35
                                     GCGGGGAAAATTCAGCCAGCAAGGTGTGACCTACT     <  1:18821020/35‑1
                                     GCGGGGAAAATTCAGCCAGCAAGGTGTGACCTACT     >  1:5058229/1‑35
                                     GCGGGGAAAATTCAGCAAGCAAGGTGTGACCTACT     <  1:19238877/35‑1
                                      ctGGGAAAATTCAGCCAGCAAGGTGTGACCTACTG    <  1:7207375/33‑1
                                      CGGGGAAAATTCAGCCAGCAAGGTGTGACCTACTG    >  1:1102675/1‑35
                                      CGGGGAAAATTCAGCCAGCAAGGTGTGACCTACTG    >  1:5726514/1‑35
                                      CGGGGAAAATTCAGCCAGCAAGGTGTGACCTACTG    >  1:4753052/1‑35
                                      CGGGGAAAATTCAGCCAGCAAGGTGTGACCTACTG    >  1:15099608/1‑35
                                      CGGGGAAAATTCAGCCAGCAAGGTGTGACCTACTG    >  1:2471594/1‑35
                                      CGGGGAAAATTCAGCCAGCAAGGTGTGACCTACTG    <  1:2307384/35‑1
                                      CGGGGAAAATTCAGCCAGCAAGGTGTGACCTACTG    >  1:20251436/1‑35
                                       GGGGAAAATTCAGCCAGCAAGGTGTGACCTACTGA   >  1:10501449/1‑35
                                       GGGGAAAATTCAGCCAGCAAGGTGTGACCTACTGA   <  1:14855203/35‑1
                                       GGGGAAAATTCAGCCAGCAAGGTGTGACCTACTGA   >  1:17005242/1‑35
                                       GGGGAAAATTCAGCCAGCAAGGTGTGACCTACTGA   >  1:13222914/1‑35
                                       GGGGAAAATTCAGCCAGCAAGGTGTGACCTACTGA   >  1:17637157/1‑35
                                       GGGGAAAATTCAGCCAGCAAGGTGTGACCTACTGA   >  1:19381601/1‑35
                                       GGGGAAAATTCAGCCAGCAAGGTGTGACCTACTGA   >  1:6408998/1‑35
                                       GGGGAAAATTCAGCCAGCAAGGTGTGACCTACTGA   >  1:4349756/1‑35
                                       GGGGAAAATTCAGCCAGCAAGGTGTGACCTACTGA   >  1:4864003/1‑35
                                        GGGAAAATTCAGCCAGCAAGGTGTGACCTACTGAA  >  1:17400440/1‑35
                                        GGGAAAATTCAGCCAGCAAGGTGTGACCTACTGAA  <  1:12096673/35‑1
                                        GGGAAAATTCAGCCAGCAAGGTGTGACCTACTGAA  <  1:9329769/35‑1
                                        GGGAAAATTCAGCCAGCAAGGTGTGACCTACTGAA  >  1:9365553/1‑35
                                                                           
CCCGCTCAAAACGGTCTGCGCCTCTTCACTGGTTGGCGCGG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  REL606/601531‑601491
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ggcgcggGGAAAATTCAGCCAGCAAGGTGTGACCTACTGAA  >  REL606/2785963‑2785996

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 33 ≤ 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.