New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? REL606 589886 =NA (NA)37 (0.710) 21/66 1.2 NA noncoding (437/768 nt) IS1 repeat region
?REL606 = 590471 NA (NA)noncoding (1977/1977 nt) IS150 repeat region

GCTAAATCGCGCCAGCGCTGGCTGTTTTACGCGTATG.............................  <  REL606/589920‑589886
...................................TGTACTGACCCCAAAAAGTTGGACAGTTAAA  <  REL606/590471‑590441
                                                                  
  TAAATCGCGCCAGCGCTGGCTGTTTTTCGCGTATGT                              >  2:2336717/1‑36 (MQ=12)
  TAAATCGCGCCAGCGCTGGCTGTTTTACGCGTATGT                              <  1:2465990/36‑1 (MQ=32)
    AATCGCGCCAGCGCTGGCTGGTTTACGCGTATGTAa                            >  1:130144/1‑35 (MQ=255)
     ATCGCGCCAGCGCTGGCTGTTTTACGCGTATGTACT                           <  1:2293644/36‑1 (MQ=38)
      TCGCGCCAGCGCTGGCTGTTTTACGCGTATGTACTG                          <  1:1197180/36‑1 (MQ=38)
          cCCAGCGCTGGCTGTTTTACGCGTATGTACTGACCC                      <  1:2834758/35‑1 (MQ=17)
           CCAGCGGTGGCTGTTTTACGCGTATGTACTGACCCC                     <  2:2967052/36‑1 (MQ=12)
            CAGCGCTGGCTGGTTTACGCGTATGTACTGACCCCA                    >  1:2875678/1‑36 (MQ=0)
               CGCTGGCTGTTTTACGCGTATGTACTTACCCCAAAA                 >  2:3191461/1‑36 (MQ=0)
                GCTGGGTGTTTTACGCGTATGTACTGACCCCAAAAA                <  1:1991542/36‑1 (MQ=0)
                   GGCTGTTTTACGCGTATGTACTGACCCCAAAAAGTT             <  2:2061235/36‑1 (MQ=1)
                   GGCTGTTTTACGCGTATGTACTGACCCCAAAAAGTT             <  1:2503506/36‑1 (MQ=1)
                    gcaGTTTTACGCGTATGTACTGACCCCAAAAAGTTG            <  2:3616550/33‑1 (MQ=0)
                    GCTGTTTTACGCGTATGTACTGACCCCAAAAAGTTG            <  1:620173/36‑1 (MQ=1)
                    GCTGTTTTACGCGTATGTACTGACCCCAAAAAGTTG            <  1:1106729/36‑1 (MQ=1)
                      TGTTTTACGCGTATGTACTGACCCCAAAAAGTTGGA          >  2:2353911/1‑36 (MQ=1)
                      TGTTTTACGCGTATGTACTGACCCCAAAAAGTTGGA          <  1:1641709/36‑1 (MQ=1)
                      TGTTTTACGCGTATGTACTGACCCCAAAAAGTTGGA          <  2:1514523/36‑1 (MQ=1)
                      TGTTTTACGCGTATGTACTGACCCCAAAAAGTTGGA          >  1:915481/1‑36 (MQ=1)
                       GTTTTACTCGTATGTACTGACCCCAAAAAGTTGGAC         <  2:3058345/36‑1 (MQ=0)
                       GTTTTACGCGTATGTACTGACCCCAAAAAGTTGGAC         >  2:3645391/1‑36 (MQ=1)
                       GTTTTACGCGTATGTACTGACCCCAAAAAGTTGGAC         >  1:3506862/1‑36 (MQ=1)
                       GTTTTACGCGTATGTACTGACCCCAAAAAGTTGGAC         >  1:3358827/1‑36 (MQ=1)
                       GTTTTACGCGTATGTACTGACCCCAAAAAGTTGGAC         >  1:3180690/1‑36 (MQ=1)
                       GTTTTACGCGTATGTACTGACCCCAAAAAGTTGGAC         <  1:3170498/36‑1 (MQ=1)
                         TTTACGCGTATGTACTGACCCCAAAAAGTTGGACAG       <  2:1744239/36‑1 (MQ=1)
                         TTTACGCGTATGTACTGACCCCAAAAAGTTGGACAG       >  2:2943643/1‑36 (MQ=1)
                          TTACGCGTATGTACTGACCCCAAAAAGTTGGACAct      >  1:785057/1‑34 (MQ=1)
                          TTACGCGTATGTACTGACCCCAAAAAGTTGGACAGT      >  2:2902188/1‑36 (MQ=1)
                          TTACGCGTATGTACTGACCCCAAAAAGTTGGACAGT      >  1:2865714/1‑36 (MQ=1)
                          TTACGCGTATGTACTGACCCCAAAAAGTTGGACAGT      >  1:2697100/1‑36 (MQ=1)
                           TACGCGTATGTACTGACCCCAAAAAGTTGGACAGTT     <  1:2686747/36‑1 (MQ=1)
                           TACGCGTATGTACTGACCCCAAAAAGTTGGACAGTT     <  1:1235836/36‑1 (MQ=1)
                             CGCGTATGTACTGACCCCAAAAAGTTGGACAGTTAA   <  2:1629344/36‑1 (MQ=1)
                              GCGTATGTACTGACCCCAAAAAGTTGGACAGTTAAA  >  2:1735524/1‑36 (MQ=1)
                              GCGTATGTACTGACCCCAAAAAGTTGGACAGTTAAA  <  2:3147658/36‑1 (MQ=1)
                              GCGTATGTACTGACCCCAAAAAGTTGGACAGTTAAA  <  1:2427399/36‑1 (MQ=1)
                                                                  
GCTAAATCGCGCCAGCGCTGGCTGTTTTACGCGTATG.............................  <  REL606/589920‑589886
...................................TGTACTGACCCCAAAAAGTTGGACAGTTAAA  <  REL606/590471‑590441

Base quality scores:  ATCG  < 3 ≤  ATCG  < 8 ≤  ATCG  < 15 ≤  ATCG  < 26 ≤  ATCG  < 32 ≤  ATCG