New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_014034 221956 =296 (1.300)60 (0.260) 21/186 16.5 0.15 coding (701/2748 nt) RCAP_rcc00185 hypothetical protein
?NC_014034 = 222101 365 (1.490)coding (556/2748 nt) RCAP_rcc00185 hypothetical protein
Rejected: Position hash score below cutoff.

ATCCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCC.......................................................................................................  <  NC_014034/222031‑221956
...................................................................................CCGACCGATCCCACGGACCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACG  <  NC_014034/222101‑222006
                                                                            |||||||                                                                                                
acCCCACGGTCCCGACCGATCCCCCGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGAC                                                                                <  2:636500/99‑1 (MQ=0)
 aCCCACGGGCCCGACCGATCCCACGGATCCGCCCGCTCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACC                                                                               <  2:4935444/100‑1 (MQ=0)
  CCCACGGCCCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCGACGGACCC                                                                              <  2:4164793/101‑1 (MQ=0)
  CCCACGGATCCGACCGATCCCACGGATCCGACGGACCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCC                                                                              >  2:174852/1‑101 (MQ=0)
  CCCACGGATCCGACCGATCCCACGGATCCGACGGACCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCC                                                                              <  1:916030/101‑1 (MQ=0)
  CCCACGGATCCGACCGATCCCACGGATCCGACGGACCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCC                                                                              >  1:3125997/1‑101 (MQ=0)
  CCCACGGATCCGACCGATCCCACGGATCCGACGGACCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCC                                                                              >  1:2594626/1‑101 (MQ=0)
  CCCACGGATCCGACCGATCCCACGGATCCGACGGACCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCC                                                                              >  1:2276711/1‑101 (MQ=0)
  CCCACGGATCCGACCGATCCCACGGATCCGACGGACCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCC                                                                              >  1:1008170/1‑101 (MQ=0)
  CCCACGGATCCGACCGATCCCACGGATCCGACGGACCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCC                                                                              <  1:1848723/101‑1 (MQ=0)
  CCCACGGACCCGCCCGATCCCACGGACCCGCCCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCC                                                                              <  1:32695/101‑1 (MQ=0)
  CCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACGGACCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCC                                                                              <  2:4401227/101‑1 (MQ=21)
  CCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACGGACCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCC                                                                              <  1:3729493/101‑1 (MQ=21)
  CCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACGGACCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCC                                                                              <  1:348084/101‑1 (MQ=21)
  CCCACGGACCCGACCGATCCCACGGACCCGAGCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGCTCCCACGGACCC                                                                              >  1:4476715/1‑101 (MQ=2)
   cccCGGACCCGACCGATCCCCCGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCG                                                                             <  2:4312455/98‑1 (MQ=0)
   CCACGGGCCCGACCGATCCCACCGATCCCACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCG                                                                             <  1:2632514/101‑1 (MQ=0)
   CCACGGATCCGACCGATCCCACGGATCCGACGGACCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCc                                                                             >  1:676724/1‑100 (MQ=0)
   CCACGGACCCGCCCGATCCCACGGATCCGACGGACCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCG                                                                             <  2:2034974/101‑1 (MQ=0)
   CCACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACGGACCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCG                                                                             <  2:2901441/101‑1 (MQ=21)
   CCACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACGGACCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCG                                                                             <  2:138359/101‑1 (MQ=21)
   CCACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACGGACCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCG                                                                             <  1:1052717/101‑1 (MQ=21)
   CCACGGACCCGACCGATCCCACGGATCCCACCGATCCGACGGACCCGACCGATCCCACGGACCCGACCGATCCGACGGACCCGACCGATCCCACGGACCCG                                                                             <  2:1364407/101‑1 (MQ=0)
   CCACGGACCCGACCGATCCCACGGATCCCACCGATCCGACGGACCCGACCGATCCCACGGACCCGACCGATCCGACGGACCCGACCGATCCCACGGACCCG                                                                             <  1:1645632/101‑1 (MQ=0)
   CCACGGACCCGACCGATCCCACGGATCCCACCGATCCGACGGACCCGACCGATCCCACGGACCCGACCGATCCGACGGACCCGACCGATCCCACGGACCCG                                                                             <  1:4846360/101‑1 (MQ=0)
   CCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCGGACCGATCCCACGGACCCGACCGATCCCACAGACCCG                                                                             >  1:702121/1‑101 (MQ=2)
   CCACGGACCCCGCCGACCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCG                                                                             <  1:3572282/101‑1 (MQ=0)
    CACGGATCCGACCGATCCCACGGATCCGACGGACCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGA                                                                            <  1:3493529/101‑1 (MQ=0)
    CACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACGGACCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGc                                                                            >  1:4825240/1‑100 (MQ=25)
    CACGGACCCGACCGATCCCACGGATCCCACCGATCCGACGGACCCGACCGATCCCACGGACCCGACCGATCCGACGGACCCGACCGATCCCACGGACCCGA                                                                            >  1:694419/1‑101 (MQ=0)
    CACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCGACGGACCCGACGGATCCCACGGACCCGA                                                                            >  2:2345867/1‑101 (MQ=0)
     cCGGATCCGACCGATCCCACGGATCCGACGGACCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGAC                                                                           <  1:1060985/100‑1 (MQ=0)
     cCGGAACCGACCGATCCCACGGATCCGACGGACCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGAC                                                                           <  2:405038/100‑1 (MQ=0)
     ACGGGCCCGACCGATCCCACGGCCCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGAC                                                                           <  2:228597/101‑1 (MQ=0)
     ACGGACCCGACCGATCCCACGGATCCCACCGATCCGACGGACCCGACCGATCCCACGGACCCGACCGATCCGACGGACCCGACCGATCCCACGGACCCGAC                                                                           >  2:4073156/1‑101 (MQ=0)
     ACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCGACGGGCCCGAC                                                                           >  1:3676861/1‑101 (MQ=0)
      ctGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCGACGGACCCGACCGATCCCACGGACCCGACc                                                                          <  1:341954/99‑2 (MQ=1)
      CGGATCCGACCGATCCCACGGATCCGACGGACCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACc                                                                          >  2:63274/1‑100 (MQ=0)
      CGGATCCGACCGATCCCACGGATCCGACGGACCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACc                                                                          <  1:841245/101‑2 (MQ=0)
      CGGATCCGACCGATCCCACGGATCCGACGGACCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACc                                                                          >  2:3077558/1‑100 (MQ=0)
      CGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCGACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCCACc                                                                          >  1:4408746/1‑100 (MQ=0)
       GGATCCGACCGATCCCACGGATCCGACGGACCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACcg                                                                         <  1:4908647/101‑3 (MQ=0)
       GGATCCGACCGATCCCACGGATCCGACGGACCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACcg                                                                         >  1:4961698/1‑99 (MQ=0)
       GGACCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACGGACCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACcg                                                                         <  1:2444676/101‑3 (MQ=18)
       GGACCCGACCGATCCCACGGATCCCACCGATCCGACGGACCCGACCGATCCCACGGACCCGACCGATCCGACGGACCCGACCGATCCCACGGACCCGACGG                                                                         >  2:1269246/1‑101 (MQ=9)
       GGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCGACGGACCCGcccg                                                                         >  2:4102895/1‑97 (MQ=0)
       GGACCCGACCCATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCGACGGACCCGACcg                                                                         <  2:576216/101‑3 (MQ=0)
        GACCCGACCGATCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACCAACCCCACGGA                                                                        >  1:4342756/1‑101 (MQ=0)
        GACCCGACCGATCCCACGGATCCCACCGATCCGACGGACCCGACCGATCCCACGGACCCGACCGATCCGACGGACCCGACCGATCCCACGGACCCGACGGA                                                                        >  1:2388024/1‑101 (MQ=9)
         ACCCGACCGATCCCACGGATCCCACCGATCCGACGGACCCGACCGATCCCACGGACCCGACCGATCCGACGGACCCGACCGATCCCACGGACCCGACGGAC                                                                       >  2:3836376/1‑101 (MQ=9)
          CCCGACCGATCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACGGACC                                                                      <  1:307033/101‑1 (MQ=14)
          CCCGACCGATCCCACGGATCCCACCGATCCGACGGACCCGACCGATCCCACGGACCCGACCGATCCGACGGACCCGACCGATCCCACGGACCCGACGGACC                                                                      >  1:124880/1‑101 (MQ=12)
            CGACCGATCCCACGGATCCCACCGATCCGACGGACCCGACCGATCCCACGGACCCGACCGATCCGACGGACCCGACCGATCCCACGGACCCGACGGACCCc                                                                    <  1:5005436/101‑2 (MQ=12)
             GACCGATCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACGGACCCcc                                                                   >  1:4690137/1‑99 (MQ=14)
             GACCGATCCCACGGATCCCACCGATCCGACGGACCCGACCGATCCCACGGACCCGACCGATCCGACGGACCCGACCGATCCCACGGACCCGACGGACCCca                                                                   >  1:2949440/1‑99 (MQ=12)
                CGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCGACGGACCCCACGGACCCGACCa                                                                >  2:2316827/1‑100 (MQ=0)
                 GATCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACGGACCCCACCGc                                                               >  1:2075276/1‑100 (MQ=14)
                  ATCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGCCCGACCCCACCGAc                                                              >  1:1458778/1‑100 (MQ=2)
                                     TCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACGGACCCCACGGATCCGACGGACCCGACCGATC                                           <  2:4824913/101‑1 (MQ=0)
                                                          tACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCA                      <  2:4544349/100‑1 (MQ=2)
                                                           ACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCAC                     <  1:5030881/101‑1 (MQ=0)
                                                           ACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCAC                     <  1:4791179/101‑1 (MQ=0)
                                                            CGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCACG                    >  2:3887955/1‑101 (MQ=0)
                                                             GGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGG                   <  1:4127559/101‑1 (MQ=0)
                                                               gCCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGAC                 <  1:2435763/100‑1 (MQ=0)
                                                                CCCGGCCGAGCCCACGGACCCGACCGATCCCACGGACCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACC                <  2:4779376/101‑1 (MQ=0)
                                                                 CCGACCGATCCCACGGACCCGACCGATCCCACGGACCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGACCC               <  1:557506/101‑1 (MQ=0)
                                                                    ACCGATCCCACGGACCCGACCGATCCCACGGACCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGACCCGAC            >  1:2798854/1‑101 (MQ=0)
                                                                    ACCGATCCCACGGACCCGACCGATCCCACGGACCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGACCCGAC            <  2:1934282/101‑1 (MQ=0)
                                                                      CGATCCCACGGACCCGACCGATCCCACGGACCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGACCCGACCG          >  1:3970252/1‑101 (MQ=0)
                                                                            CACGGACCCGACCGATCCCACGGACCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCA    <  1:4474281/101‑1 (MQ=0)
                                                                             ACGGACCCGACCGATCCCACGGACCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCAC   <  1:2490084/101‑1 (MQ=0)
                                                                              CGGACCCGACCGATCCCACGGACCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACG  <  2:3957605/101‑1 (MQ=0)
                                                                            |||||||                                                                                                
ATCCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCC.......................................................................................................  <  NC_014034/222031‑221956
...................................................................................CCGACCGATCCCACGGACCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACG  <  NC_014034/222101‑222006

Base quality scores:  ATCG  < 3 ≤  ATCG  < 15 ≤  ATCG  < 23 ≤  ATCG  < 31 ≤  ATCG  < 40 ≤  ATCG