New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_014034 = 1396737142 (1.050)42 (0.310) 7/128 20.6 0.24 coding (619/1578 nt) RCAP_rcc01307 hypothetical protein
?NC_014034 1397903 = 127 (0.600)intergenic (+207/+1691) RCAP_rcc01307/RCAP_rcc01309 hypothetical protein/IS66 family transposase
Rejected: Position hash score below cutoff.

GCGATCCGTCATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC..............................................................................  >  NC_014034/1396693‑1396737
.................................................................................GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCTATGGGAG  >  NC_014034/1397903‑1397944
                                             ||||||||||||||||||||||||||||||||||||                                          
acggcgggctATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGC                        <  1:3128983/91‑1 (MQ=0)
acggcgggctATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGC                        <  2:1944034/91‑1 (MQ=0)
 cggcgggctATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCG                       <  2:539692/92‑1 (MQ=0)
 cggcgggctATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCG                       <  2:4185976/92‑1 (MQ=0)
 cggcgggctATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCG                       >  2:2020213/10‑101 (MQ=0)
 cggcgggctATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCG                       >  1:886214/10‑101 (MQ=0)
 cggcgggctATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCG                       >  1:794005/10‑101 (MQ=0)
  ggcgggctATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGT                      >  1:1397651/9‑101 (MQ=0)
  ggcgggctATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGT                      <  2:3829957/93‑1 (MQ=0)
    cgggctATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGG                    <  1:1363053/95‑1 (MQ=0)
    cgggctATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATATGCGGCGTCGCTCCCCCCGCGGGGGCGTGG                    <  2:1775742/95‑1 (MQ=0)
      ggctATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGAT                  <  2:2943274/97‑1 (MQ=1)
      ggctATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGAT                  <  1:1265166/97‑1 (MQ=1)
       gctATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATC                 <  1:4103861/98‑1 (MQ=1)
       gctATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATC                 <  2:3689584/98‑1 (MQ=1)
        ttATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCG                <  2:512343/99‑1 (MQ=1)
        ctATCGTCGCTCCCCCCGCTGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCGGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCG                >  1:3667340/3‑101 (MQ=0)
        ctATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCG                <  2:3909026/99‑1 (MQ=1)
         tATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGc               >  1:512400/2‑100 (MQ=1)
         tATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGA               >  2:2813122/2‑101 (MQ=1)
          ATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAA              >  2:1583620/1‑101 (MQ=1)
          ATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAA              >  1:3139733/1‑101 (MQ=1)
          ATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAA              >  2:2043874/1‑101 (MQ=1)
          ATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAA              >  2:3253669/1‑101 (MQ=1)
           TCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAA             >  1:1696140/1‑101 (MQ=1)
           TCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAA             >  2:4067721/1‑101 (MQ=1)
            CGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC            >  2:836257/1‑101 (MQ=1)
            CGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC            >  2:3618542/1‑101 (MQ=1)
            CGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC            <  2:292905/101‑1 (MQ=1)
             GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACg           >  2:3377662/1‑100 (MQ=1)
               CGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGCT         <  2:896233/101‑1 (MQ=1)
                gcgCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGCTg        <  1:648318/98‑2 (MQ=0)
                GCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGCTg        >  1:2438902/1‑100 (MQ=1)
                GCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGCTg        <  2:639350/101‑2 (MQ=1)
                 CTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGCTgc       >  2:2861610/1‑99 (MQ=1)
                   CCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGCTgctg     >  2:2927319/1‑97 (MQ=1)
                   CCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGCTgctg     <  1:2122348/101‑5 (MQ=1)
                    CCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGCTgctga    >  2:1438207/1‑96 (MQ=0)
                     CCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGCTgctgac   >  1:3279536/1‑95 (MQ=0)
                      CCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGCTgctgaca  <  1:3223744/101‑8 (MQ=0)
                      CCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGCTgctgaca  <  1:3862991/101‑8 (MQ=0)
                      CCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGCTgctgaca  >  1:509635/1‑94 (MQ=0)
                                             ||||||||||||||||||||||||||||||||||||                                          
GCGATCCGTCATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC..............................................................................  >  NC_014034/1396693‑1396737
.................................................................................GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCTATGGGAG  >  NC_014034/1397903‑1397944

Base quality scores:  ATCG  < 3 ≤  ATCG  < 20 ≤  ATCG  < 27 ≤  ATCG  < 33 ≤  ATCG  < 39 ≤  ATCG