New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_014034 221976 =843 (3.440)73 (0.300) 12/196 21.7 0.09 coding (681/2748 nt) RCAP_rcc00185 hypothetical protein
?NC_014034 = 222083 574 (2.340)coding (574/2748 nt) RCAP_rcc00185 hypothetical protein
Rejected: Position hash score below cutoff.

CCCGACCGATCCTACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGACCCGACCGAT....................................................................................................  <  NC_014034/222075‑221976
....................................................................................................CCGACGGACCCGACCGATCCTACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGACC  <  NC_014034/222083‑221984
                                                                                                                                                                                                        
CCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATC                                                                                                     <  1:2743096/101‑1 (MQ=0)
CCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATC                                                                                                     <  1:3261758/101‑1 (MQ=2)
 CCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCC                                                                                                    <  2:3190443/101‑1 (MQ=0)
 CCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCC                                                                                                    >  1:1405262/1‑101 (MQ=2)
 CCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCC                                                                                                    <  1:1811687/101‑1 (MQ=0)
 CCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCC                                                                                                    <  1:1310692/101‑1 (MQ=0)
         TCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCGACGGAtc                                                                                            >  2:4502932/1‑99 (MQ=9)
             ACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCGACGGGCCCGAC                                                                                        >  1:3676861/1‑101 (MQ=0)
               GGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCGACGGACCCGCCCG                                                                                      >  2:4102895/1‑101 (MQ=0)
               GGACCCGACCCATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCGACGGACCCGACCG                                                                                      <  2:576216/101‑1 (MQ=0)
                             CCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCG                                                                        <  1:4429174/101‑1 (MQ=0)
                                ctgacCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCGACGGACCCGACCGATCCCACGGACCCGACC                                                                     <  1:341954/96‑1 (MQ=1)
                                               cgACGGACCCGACCGATCCCACGGATCCGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCG                                                      >  1:1141956/3‑101 (MQ=0)
                                                gACGGACCCGACCGATCCCACGGATCCGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGc                                                     >  2:1138113/2‑100 (MQ=0)
                                                 ACGGACCCGACCGATCCCACGGATCCGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGAC                                                    >  2:1811554/1‑101 (MQ=0)
                                                  CGGACCCGACCGATCCCACGGATCCGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACC                                                   <  1:3000167/101‑1 (MQ=0)
                                                  CGGACCCGACCGATCCCACGGATCCGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACC                                                   <  1:2690273/101‑1 (MQ=0)
                                                   GGACCCGACCGATCCCACGGATCCGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCG                                                  >  2:1306952/1‑101 (MQ=0)
                                                   GGACCCGACCGATCCCACGGATCCGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCG                                                  >  2:2742895/1‑101 (MQ=0)
                                                   GGACCCGACCGATCCCACGGATCCGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCG                                                  >  1:1077389/1‑101 (MQ=0)
                                                    GACCCGACCGATCCCACGGATCCGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGA                                                 >  2:1240232/1‑101 (MQ=0)
                                                    GACCCGACCGATCCCACGGATCCGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGA                                                 >  2:3311430/1‑101 (MQ=0)
                                                           CCGATCCCACGGATCCGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACG                                          <  2:4221256/101‑1 (MQ=2)
                                                           CCGATCCCACGGATCCGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACG                                          <  1:3311692/101‑1 (MQ=2)
                                                            CGATCCCACGGATCCGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGG                                         >  1:1680042/1‑101 (MQ=0)
                                                            CGATCCCACGGATCCGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGG                                         <  1:671083/101‑1 (MQ=2)
                                                             GATCCCACGGATCCGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGA                                        >  1:1795174/1‑101 (MQ=0)
                                                              ATCCCACGGATCCGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGAC                                       >  2:3497936/1‑101 (MQ=0)
                                                                    CGGATCCGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGACCCGACC                                 >  1:1027728/1‑101 (MQ=2)
                                                                         CCGACCGATCCCACGGATCCGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCC                            <  2:2817248/101‑1 (MQ=0)
                                                                         CCGACCGATCCCACGGATCCGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCC                            >  1:2867614/1‑101 (MQ=0)
                                                                          CGACCGATCCCACGGATCCGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCC                           >  1:4878154/1‑101 (MQ=2)
                                                                          CGACCGATCCCACGGATCCGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCC                           <  1:626536/101‑1 (MQ=2)
                                                                          CGACCGATCCCACGGATCCGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCC                           <  1:3179072/101‑1 (MQ=0)
                                                                           GACCGATCCCACGGATCCGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCA                          >  1:1381733/1‑101 (MQ=2)
                                                                           GACCGATCCCACGGATCCGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCA                          >  1:2092250/1‑101 (MQ=2)
                                                                            ACCGATCCCACGGATCCGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGACCCGACCGATCCCAC                         >  2:2718996/1‑101 (MQ=18)
                                                                             CCGATCCCACGGATCCGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACG                        <  2:635033/101‑1 (MQ=0)
                                                                              CGATCCCACGGATCCGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGG                       >  2:982553/1‑101 (MQ=2)
                                                                               GATCCCACGGATCCGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGA                      >  1:4994590/1‑101 (MQ=0)
                                                                                ATCCCACGGATCCGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGAT                     >  1:2374590/1‑101 (MQ=9)
                                                                                  ccgACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCC                   <  1:4669841/98‑1 (MQ=0)
                                                                                      CGGATCCGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACC               <  1:3767911/101‑1 (MQ=12)
                                                                                      CGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACC               <  2:4804293/101‑1 (MQ=2)
                                                                                        gatCCGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGA             >  1:3304250/4‑101 (MQ=12)
                                                                                         atCCGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGAT            >  1:3295346/3‑101 (MQ=9)
                                                                                         ACCCGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGAT            <  1:1441081/101‑1 (MQ=0)
                                                                                          CCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATC           >  2:4760452/1‑101 (MQ=2)
                                                                                           CCGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGCCCGATCC          >  2:3426194/1‑101 (MQ=0)
                                                                                           CCGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCC          >  2:3631119/1‑101 (MQ=0)
                                                                                           CCGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCC          >  1:121769/1‑101 (MQ=0)
                                                                                            cgcCCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCC         <  1:789262/98‑1 (MQ=0)
                                                                                            CGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCC         <  2:5016845/101‑1 (MQ=0)
                                                                                            CGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCC         <  1:5023177/101‑1 (MQ=0)
                                                                                             GACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCA        <  2:2486897/101‑1 (MQ=0)
                                                                                             GACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCA        >  1:828142/1‑101 (MQ=0)
                                                                                             GACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCA        >  2:2054555/1‑101 (MQ=0)
                                                                                             GACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCA        <  1:3479273/101‑1 (MQ=0)
                                                                                              ACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCAC       >  2:521031/1‑101 (MQ=0)
                                                                                              ACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCAC       <  2:2092102/101‑1 (MQ=0)
                                                                                              ACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCAC       <  2:1307959/101‑1 (MQ=0)
                                                                                              ACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCAC       <  2:4311654/101‑1 (MQ=0)
                                                                                               CCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACG      <  2:1711200/101‑1 (MQ=0)
                                                                                                CGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGG     <  1:2950469/101‑1 (MQ=0)
                                                                                                CGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGG     >  2:4697150/1‑101 (MQ=0)
                                                                                                CGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGG     >  2:33789/1‑101 (MQ=0)
                                                                                                CGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGG     <  1:1160963/101‑1 (MQ=0)
                                                                                                CGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGG     >  1:3925939/1‑101 (MQ=0)
                                                                                                CGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATACCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGG     >  2:1030616/1‑101 (MQ=0)
                                                                                                 GATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGA    >  2:470031/1‑101 (MQ=0)
                                                                                                 GATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGA    >  1:3042694/1‑101 (MQ=0)
                                                                                                 GATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGA    >  2:2082520/1‑101 (MQ=0)
                                                                                                 GATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGA    >  1:3192344/1‑101 (MQ=0)
                                                                                                  ATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGAt   <  1:276401/101‑2 (MQ=0)
                                                                                                  ATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGAt   >  2:2950241/1‑100 (MQ=0)
                                                                                                  ATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGAt   <  2:2630990/101‑2 (MQ=0)
                                                                                                   TCCGACGGACCCGCCCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGAtc  <  2:3774700/101‑3 (MQ=0)
                                                                                                   TCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGAtc  <  2:4670301/101‑3 (MQ=0)
                                                                                                   TCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGAtc  >  1:1518134/1‑99 (MQ=0)
                                                                                                                                                                                                        
CCCGACCGATCCTACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGACCCGACCGAT....................................................................................................  <  NC_014034/222075‑221976
....................................................................................................CCGACGGACCCGACCGATCCTACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGACC  <  NC_014034/222083‑221984

Base quality scores:  ATCG  < 3 ≤  ATCG  < 17 ≤  ATCG  < 24 ≤  ATCG  < 33 ≤  ATCG  < 40 ≤  ATCG