New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_014034 221956 =319 (1.660)45 (0.230) 3/162 33.4 0.07 coding (701/2748 nt) RCAP_rcc00185 hypothetical protein
?NC_014034 = 222062 830 (3.490)coding (595/2748 nt) RCAP_rcc00185 hypothetical protein
Rejected: Position hash score below cutoff.

CGACCGATCCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCC.....................................................................................................  <  NC_014034/222037‑221956
...................................................................................ACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGA  <  NC_014034/222062‑221963
                                                                                  |                                                                                                    
ccACCGATCCCACGGACCCGACCGATCCCACGGATCCGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCC                                                                                    <  2:2288897/99‑1 (MQ=0)
         cgACGGACCCGACCGATCCCACGGATCCGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCG                                                                           >  2:497135/3‑101 (MQ=0)
         cgACGGACCCGACCGATCCCACGGATCCGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCG                                                                           <  1:2636330/99‑1 (MQ=0)
           ACGGACCCGACCGATCCCACGGATCCGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGAC                                                                         <  2:585364/101‑1 (MQ=0)
           ACGGACCCGACCGATCCCACGGATCCGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGAC                                                                         <  1:1910795/101‑1 (MQ=0)
           ACGGACCCGACCGATCCCACGGATCCGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGAC                                                                         <  1:2729808/101‑1 (MQ=0)
            CGGACCCGACCGATCCCACGGATCCGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACC                                                                        >  2:1812326/1‑101 (MQ=2)
                   GACCGATCCCACGGATCCGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCA                                                                 <  2:4545851/101‑1 (MQ=9)
                    gCCGATCCCACGGATCCGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCAC                                                                <  1:3198622/100‑1 (MQ=12)
                    ACCGATCCCACGGATCCGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCAC                                                                <  1:2793970/101‑1 (MQ=9)
                    ACCGATCCCACGGATCCGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCAC                                                                >  2:1637334/1‑101 (MQ=12)
                    ACCGATCCCACGGATCCGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCAC                                                                >  2:1164612/1‑101 (MQ=12)
                     CCGATCCCACGGATCCGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACG                                                               >  1:1583124/1‑101 (MQ=16)
                      CGATCCCACGGATCCGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGG                                                              >  2:4506131/1‑101 (MQ=12)
                      CGATCCCACGGATCCGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGG                                                              >  1:2282848/1‑101 (MQ=12)
                       GATCCCACGGATCCGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGg                                                             >  1:2969098/1‑100 (MQ=12)
                       GATCCCACGGATCCGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGA                                                             >  1:972700/1‑101 (MQ=12)
                       GATCCCACGGATCCGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGA                                                             >  1:2097969/1‑101 (MQ=12)
                       GATCCCACGGATCCGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGA                                                             >  1:1829505/1‑101 (MQ=12)
                        ATCCCACGGATCCGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGAt                                                            <  2:375838/101‑2 (MQ=12)
                         TCCCACGGATCCGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGAtc                                                           <  1:173510/101‑3 (MQ=12)
                             ACGGATCCGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGACCCGAC                                                       >  2:1336018/1‑101 (MQ=0)
                                         GATCCCACGGACCCGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGA                                           <  1:3607149/101‑1 (MQ=0)
                                               ACGGACCCGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGAC                                     <  1:1031052/101‑1 (MQ=0)
                                                     CCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCC                               <  1:1183519/101‑1 (MQ=0)
                                                      CGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCC                              <  2:934313/101‑1 (MQ=0)
                                                      CGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCC                              >  2:3985571/1‑101 (MQ=0)
                                                      CGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCC                              <  1:770790/101‑1 (MQ=0)
                                                      CGACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCC                              <  1:4103302/101‑1 (MQ=0)
                                                       GACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCc                             >  1:4264463/1‑100 (MQ=0)
                                                       GACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCA                             >  1:4207502/1‑101 (MQ=0)
                                                       GACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCA                             <  1:2104185/101‑1 (MQ=0)
                                                       GACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCA                             <  2:1280464/101‑1 (MQ=0)
                                                        ACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCAC                            >  2:4277015/1‑101 (MQ=0)
                                                        ACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCAC                            <  1:2900107/101‑1 (MQ=0)
                                                        ACCGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCAC                            >  2:3821984/1‑101 (MQ=0)
                                                        ACCGACCCCACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCAC                            <  1:1820643/101‑1 (MQ=0)
                                                         CCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACG                           <  2:1829379/101‑1 (MQ=0)
                                                         CCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACG                           >  2:323520/1‑101 (MQ=0)
                                                          CGATCCTACGGACCCGTCCGATCCTACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGG                          <  2:2364124/101‑1 (MQ=0)
                                                          CGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGG                          <  1:3362348/101‑1 (MQ=0)
                                                          CGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGG                          >  2:1125720/1‑101 (MQ=0)
                                                          CGATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGG                          >  2:1253427/1‑101 (MQ=0)
                                                           GATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGA                         >  2:2105845/1‑101 (MQ=0)
                                                           GATCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGA                         >  1:1751753/1‑101 (MQ=0)
                                                               ctACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCG                     <  2:3094106/99‑1 (MQ=9)
                                                                tgCGGACCCGACCGATCCTACGGAGCCGACCGATCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGA                    <  2:1185027/99‑1 (MQ=1)
                                                                tACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGA                    <  2:755975/100‑1 (MQ=2)
                                                                tACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGA                    <  2:3065416/100‑1 (MQ=2)
                                                                CACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGA                    <  1:3019698/101‑1 (MQ=2)
                                                                 ACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGAC                   >  2:1898335/1‑101 (MQ=0)
                                                                 ACGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGAC                   >  2:642908/1‑101 (MQ=0)
                                                                  CGGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACC                  >  2:4487683/1‑101 (MQ=2)
                                                                   GGACCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCG                 >  2:3053704/1‑101 (MQ=9)
                                                                      CCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATC              >  2:3673595/1‑101 (MQ=2)
                                                                      CCCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGACCCGACCGATC              >  1:3552473/1‑101 (MQ=0)
                                                                       CCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCC             <  1:2411717/101‑1 (MQ=0)
                                                                       CCGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCC             >  2:4367089/1‑101 (MQ=0)
                                                                        CGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCC            >  2:3476810/1‑101 (MQ=0)
                                                                        CGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCC            <  2:2353825/101‑1 (MQ=0)
                                                                        CGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCC            <  1:765184/101‑1 (MQ=0)
                                                                        CGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCC            >  1:3375294/1‑101 (MQ=2)
                                                                        CGACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCC            <  1:346224/101‑1 (MQ=0)
                                                                         GACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCA           >  1:3711282/1‑101 (MQ=2)
                                                                          cCCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCAC          <  1:2893193/100‑1 (MQ=0)
                                                                          ACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCAC          >  2:3021837/1‑101 (MQ=0)
                                                                          ACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCAC          <  1:2452514/101‑1 (MQ=0)
                                                                          ACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCAC          <  1:1944633/101‑1 (MQ=0)
                                                                          ACCGATCCTACGGACCCGACCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCAC          >  1:1803562/1‑101 (MQ=0)
                                                                           CCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACG         <  2:2341279/101‑1 (MQ=0)
                                                                           CCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACG         <  2:4355826/101‑1 (MQ=0)
                                                                           CCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACG         <  1:1125809/101‑1 (MQ=0)
                                                                           CCGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACG         <  1:2485298/101‑1 (MQ=0)
                                                                            CGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGG        >  1:2389632/1‑101 (MQ=0)
                                                                            CGATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGG        >  2:4454861/1‑101 (MQ=0)
                                                                             GATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGc       >  2:1198092/1‑100 (MQ=0)
                                                                             GATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGc       >  2:1140747/1‑100 (MQ=0)
                                                                             GATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGA       >  1:3509558/1‑101 (MQ=0)
                                                                             GATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGA       >  1:4580924/1‑101 (MQ=0)
                                                                              ATCCTACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGAC      >  1:965161/1‑101 (MQ=2)
                                                                                  TACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGACCCGA  >  2:21688/1‑101 (MQ=17)
                                                                                  TACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGACCCGA  <  1:3134148/101‑1 (MQ=17)
                                                                                  TACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGACCCGA  <  2:2839230/101‑1 (MQ=17)
                                                                                  |                                                                                                    
CGACCGATCCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCC.....................................................................................................  <  NC_014034/222037‑221956
...................................................................................ACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGA  <  NC_014034/222062‑221963

Base quality scores:  ATCG  < 3 ≤  ATCG  < 15 ≤  ATCG  < 24 ≤  ATCG  < 32 ≤  ATCG  < 40 ≤  ATCG