New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? REL606 1924695 =91 (0.890)6 (0.100) 3/28 NT 9.9% coding (52/612 nt) ruvA Holliday junction DNA helicase motor protein
?REL606 = 2696376 56 (0.930)coding (277/2145 nt) nrdE ribonucleotide‑diphosphate reductase alpha subunit

CAGACTCAGAGGCATCATCATTGAAAAACAACCCCCGCTGGTGT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  REL606/1924738‑1924695
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ccgctggtgtGTGCGTGGGCAAACAGCGTAATGACAAAGTCGCG  <  REL606/2696376‑2696343
                                                                              
CAGACTCAGAGGCATCATCATTGAAAAACAACCCC                                             <  1:18783192/35‑1
CAGACTCAGAGGCATCATCATTGAAAAACAACCCC                                             >  1:19862692/1‑35
 AGACTCAGAGGCATCATCATTGAAAAACAACCCCC                                            >  1:5832638/1‑35
 AGACTCAGAGGCATCATCATTGAAAAACAACCCCC                                            >  1:16270420/1‑35
  GACTCAGAGGCATCATCATTGAAAAACAACCCCCG                                           >  1:7717510/1‑35
  GACTCAGAGGCATCATCATTGAAAAACAACCCCCG                                           >  1:4168752/1‑35
  GACTCAGAGGCATCATCATTGAAAAACAACCCCCG                                           >  1:16519909/1‑35
  GACTCAGAGGCATCATCATTGAAAAACAACCCCCG                                           >  1:17143414/1‑35
  GACTCAGAGGCATCATCATTGAAAAACAACCCCCG                                           >  1:5269029/1‑35
  GACTCAGAGGCATCATCATTGAAAAACAACCCCCG                                           >  1:5641099/1‑35
   ACTCAGAGGCATCATCATTGAAAAACAACCCCCGC                                          >  1:3864597/1‑35
     TCAGAGGCATCATCATTGAAAAACAACCCCCGCTG                                        >  1:4163988/1‑35
     TCAGAGGCATCATCATTGAAAAACAACCCCCGCTG                                        >  1:10969070/1‑35
      CAGAGGCATCATCATTGAAAAACAACCCCCGCTGG                                       >  1:14892156/1‑35
       AGAGGCATCATCATTGAAAAACAACCCCCGCTGGT                                      >  1:18398109/1‑35
        GAGGCATCATCATTGAAAAACAACCCCCGCTGGTG                                     >  1:11893540/1‑35
        GAGGCATCATCATTGAAAAACAACCCCCGCTGGTG                                     <  1:20452348/35‑1
        GAGGCATCATCATTGAAAAACAACCCCCGCTGGTG                                     >  1:15152806/1‑35
        GAGGCATCATCATTGAAAAACAACCCCCGCTGGTG                                     >  1:5880978/1‑35
         AGGCATCATCATTGAAAAACAACCCCCGCTGGTGT                                    >  1:6152487/1‑35
                          AACAAACCCCGCTGGTGTGTGCGTGGGCAAACAGC                   <  1:18042462/35‑1
                           cCAAACCCCGCTGGTGTGTGCGTGGGCAAACAGCG                  <  1:18040694/34‑1
                           ACAAACCCCGCTGGTGTGTGCGTGGGCAAACAGCG                  <  1:4820744/35‑1
                           ACAAACCCCGCTGGTGTGTGCGTGGGCAAACAGCG                  <  1:12161356/35‑1
                            CAAACCCCGCTGGTGTGTGCGTGGGCAAACAGCGT                 <  1:17944346/35‑1
                            CAAACCCCGCTGGTGTGTGCGTGGGCAAACAGCGT                 <  1:13173028/35‑1
                             aaaCCCCGCTGGTGTGTGCGTGGGCAAACAGCGTA                <  1:5099653/32‑1
                             aaaCCCCGCTGGTGTGTGCGTGGGCAAACAGCGTA                <  1:17264953/32‑1
                              aaCCCCGCTGGTGTGTGCGTGGGCAAACAGCGTAA               <  1:11868339/33‑1
                               aCCCCGCTGGTGTGTGCGTGGGCAAACAGCGTAAT              <  1:2368409/34‑1
                                CCCCGCTGGTGTGTGCGTGGGCAAACAGCGTAATG             <  1:9531926/35‑1
                                 CCCGCTGGTGTGTGCGTGGGCAAACAGCGTAATGA            <  1:4268382/35‑1
                                 CCCGCTGGTGTGTGCGTGGGCAAACAGCGTAATGA            <  1:18977593/35‑1
                                 CCCGCTGGTGTGTGCGTGGGCAAACAGCGTAATGA            <  1:33062/35‑1
                                 CCCGCTGGTGTGTGCGTGGGCAAACAGCGTAATGA            <  1:16769424/35‑1
                                 CCCGCTGGTGTGTGCGTGGGCAAACAGCGTAATGA            <  1:1451961/35‑1
                                  CCGCTGGTGTGTGCGTGGGCAAACAGCGTAATGAC           <  1:20373087/35‑1
                                  CCGCTGGTGTGTGCGTGGGCAAACAGCGTAATGAC           <  1:13168470/35‑1
                                   CGCTGGTGTGTGCGTGGGCAAACAGCGTAATGACA          <  1:2806690/35‑1
                                   CGCTGGTGTGTGCGTGGGCAAACAGCGTAATGACA          >  1:8623612/1‑35
                                   CGCTGGTGTGTGCGTGGGCAAACAGCGTAATGACA          >  1:2652928/1‑35
                                   CGCTGGTGTGTGCGTGGGCAAACAGCGTAATGACA          <  1:12306852/35‑1
                                   CGCTGGTGTGTGCGTGGGCAAACAGCGTAATGACA          >  1:13098984/1‑35
                                   CGCTGGTGTGTGCGTGGGCAAACAGCGTAATGACA          >  1:13637039/1‑35
                                   CGCTGGTGTGTGCGTGGGCAAACAGCGTAATGACA          <  1:16811368/35‑1
                                   CGCTGGTGTGTGCGTGGGCAAACAGCGTAATGACA          >  1:579036/1‑35
                                   CGCTGGTGTGTGCGTGGGCAAACAGCGTAATGACA          >  1:5874711/1‑35
                                    GCTGGTGTGTGCGTGGGCAAACAGCGTAATGACAA         >  1:16942207/1‑35
                                    GCTGGTGTGTGCGTGGGCAAACAGCGTAATGACAA         >  1:6643591/1‑35
                                    GCTGGTGTGTGCGTGGGCAAACAGCGTAATGACAA         >  1:1504966/1‑35
                                    GCTGGTGTGTGCGTGGGCAAACAGCGTAATGACAA         >  1:17616631/1‑35
                                    GCTGGTGTGTGCGTGGGCAAACAGCGTAATGACAA         <  1:19133161/35‑1
                                    GCTGGTGTGTGCGTGGGCAAACAGCGTAATGACAA         <  1:19770199/35‑1
                                    GCTGGTGTGTGCGTGGGCAAACAGCGTAATGACAA         <  1:11362318/35‑1
                                    GCTGGTGTGTGCGTGGGCAAACAGCGTAATGACAA         <  1:11706261/35‑1
                                     CTGGTGTGTGCGTGGGCAAACAGCGTAATGACAAA        >  1:12233020/1‑35
                                     CTGGTGTGTGCGTGGGCAAACAGCGTAATGACAAA        >  1:17815271/1‑35
                                     CTGGTGTGTGCGTGGGCAAACAGCGTAATGACAAA        <  1:1469523/35‑1
                                     CTGGTGTGTGCGTGGGCAAACAGCGTAATGACAAA        >  1:6379777/1‑35
                                      TGGTGTGTGCGTGGGCAAACAGCGTAATGACAAAG       >  1:7980505/1‑35
                                      TGGTGTGTGCGTGGGCAAACAGCGTAATGACAAAG       >  1:3360865/1‑35
                                      TGGTGTGTGCGTGGGCAAACAGCGTAATGACAAAG       >  1:968039/1‑35
                                      TGGTGTGTGCGTGGGCAAACAGCGTAATGACAAAG       <  1:10130338/35‑1
                                      TGGTGTGTGCGTGGGCAAACAGCGTAATGACAAAG       >  1:274186/1‑35
                                      TGGTGTGTGCGTGGGCAAACAGCGTAATGACAAAG       >  1:10638718/1‑35
                                      TGGTGTGTGCGTGGGCAAACAGCGTAATGACAAAG       >  1:16876651/1‑35
                                      TGGTGTGTGCGTGGGCAAACAGCGTAATGACAAAG       <  1:16131602/35‑1
                                      TGGTGTGTGCGGGGGCAAACAGCGTAATGACAAAG       <  1:13551364/35‑1
                                       GGTGTGTGCGTGGGCAAACAGCGTAATGACAAAGa      >  1:9007572/1‑34
                                       GGTGTGTGCGTGGGCAAACAGCGTAATGACAAAGT      <  1:12117025/35‑1
                                       GGTGTGTGCGTGGGCAAACAGCGTAATGACAAAGT      >  1:1338870/1‑35
                                       GGTGTGTGCGTGGGCAAACAGCGTAATGACAAAGT      <  1:14932280/35‑1
                                       GGTGTGTGCGTGGGCAAACAGCGTAATGACAAAGT      <  1:15433696/35‑1
                                        GTGTGTGCGTGGGCAGACAGCGTAATGACAAAGTC     <  1:4370727/35‑1
                                        GTGTGTGCGTGGGCAAACAGCGTAATGACAAAGTC     >  1:14920818/1‑35
                                        GTGTGTGCGTGGGCAAACAGCGTAATGACAAAGTC     <  1:4702693/35‑1
                                        GTGTGTGCGTGGGCAAACAGCGTAATGACAAAGTC     <  1:11109301/35‑1
                                         TGTGTGCGTGGGCAAACAGCGTAATGACAAAGTCG    <  1:17337937/35‑1
                                         TGTGTGCGTGGGCAAACAGCGTAATGACAAAGTCG    <  1:7427905/35‑1
                                         TGTGTGCGTGGGCAAACAGCGTAATGACAAAGTCG    <  1:3249631/35‑1
                                          GTGTGCGTGGGCAAACAGCGTAATGACAAAGTCGC   >  1:18603019/1‑35
                                           TGTGCGTGGGCAAACAGCGTAATGACAAAGTCGCG  <  1:5699525/35‑1
                                           TGTGCGTGGGCAAACAGCGTAATGACAAAGTCGCG  <  1:16854158/35‑1
                                           TGTGCGTGGGCAAACAGCGTAATGACAAAGTCGCG  >  1:15174883/1‑35
                                           TGTGCGTGGGCAAACAGCGTAATGACAAAGTCGCG  >  1:13832680/1‑35
                                           TGTGCGTGGGCAAACAGCGTAATGACAAAGTCGCG  <  1:1860485/35‑1
                                           TGTGCGTGGGCAAACAGCGTAATGACAAAGTCGCG  >  1:8077655/1‑35
                                           TGTGCGTGGGCAAACAGCGTAATGACAAAGTCGCG  >  1:18924560/1‑35
                                           TGTGCGTGGGCAAACAGCGTAATGACAAAGTCGCG  <  1:2446258/35‑1
                                                                              
CAGACTCAGAGGCATCATCATTGAAAAACAACCCCCGCTGGTGT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  REL606/1924738‑1924695
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ccgctggtgtGTGCGTGGGCAAACAGCGTAATGACAAAGTCGCG  <  REL606/2696376‑2696343

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