New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_014034 221956 =332 (1.280)55 (0.210) 24/178 24.2 0.12 coding (701/2748 nt) RCAP_rcc00185 hypothetical protein
?NC_014034 = 222090 499 (1.710)coding (567/2748 nt) RCAP_rcc00185 hypothetical protein
Rejected: Position hash score below cutoff.

TCCTACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCC..........................................................................................  <  NC_014034/222066‑221956
....................................................................................................CCGACCGATCCCACGGACCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGATCC  <  NC_014034/222090‑222001
                                                                                                                                                                                                         
                 acCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGCCCGATCCCACGGAC                                                                                     >  1:3027376/3‑101 (MQ=0)
                 acCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACGGATCCCACGGAC                                                                                     >  2:5689359/3‑101 (MQ=0)
                 acCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCCCGGAC                                                                                     >  1:4325472/3‑101 (MQ=0)
                 ATCCCACGGATCCGACGGACCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGAC                                                                                     >  2:480948/1‑101 (MQ=0)
                   CCCCCGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCC                                                                                   <  1:5456191/101‑1 (MQ=12)
                   CCCACGGATCCGACGGACCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCC                                                                                   <  1:542492/101‑1 (MQ=0)
                   CCCACGGATCCGACGGACCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCC                                                                                   <  1:3098489/101‑1 (MQ=0)
                   CCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCGACGGACCC                                                                                   <  1:1162473/101‑1 (MQ=0)
                   CCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCGACGGACCC                                                                                   <  1:3899241/101‑1 (MQ=0)
                   CCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCGACGGACCC                                                                                   <  1:3394034/101‑1 (MQ=0)
                   CCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGAGCCCACGGACac                                                                                   >  2:73982/1‑99 (MQ=2)
                   CCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGAACCCACGGACCC                                                                                   >  1:5504445/1‑101 (MQ=12)
                    tCACGGATCCGACGGACCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCG                                                                                  <  1:1304888/100‑1 (MQ=0)
                    CCACGGCCCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCG                                                                                  <  1:4373157/101‑1 (MQ=12)
                    CCACGGATCCGACGGACCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCG                                                                                  <  1:1010286/101‑1 (MQ=0)
                    CCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACGGACCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCG                                                                                  <  1:3069372/101‑1 (MQ=0)
                    CCACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACGGACCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCG                                                                                  >  2:401152/1‑101 (MQ=0)
                    CCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCGACGGACCCGACCGATCCCACGGACCCG                                                                                  >  1:566379/1‑101 (MQ=17)
                    CCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCGACGGACCCGACCGATCCCACGGACCCG                                                                                  <  1:2491254/101‑1 (MQ=17)
                    CCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGCCCGATCCCACGGACCCa                                                                                  >  1:1337610/1‑100 (MQ=9)
                    CCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCGACGGACCCG                                                                                  <  1:850554/101‑1 (MQ=0)
                    CCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCGACGGACCCG                                                                                  <  1:4312551/101‑1 (MQ=0)
                    CCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCG                                                                                  <  1:4550601/101‑1 (MQ=17)
                    CCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCG                                                                                  <  2:5221069/101‑1 (MQ=17)
                    CCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCG                                                                                  <  2:1238663/101‑1 (MQ=17)
                     CACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACGGACCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGc                                                                                 >  2:4015720/1‑100 (MQ=0)
                     CACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCGACGGACCCGACCGATCCCACGGACCCca                                                                                 >  2:94980/1‑99 (MQ=17)
                     CACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCGACGGACCCca                                                                                 >  1:1442154/1‑99 (MQ=0)
                     CACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGA                                                                                 >  1:3630150/1‑101 (MQ=14)
                      tctgccCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGAC                                                                                <  2:304256/95‑1 (MQ=2)
                      ACGGATCCGACGGACCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGAC                                                                                >  2:277516/1‑101 (MQ=0)
                      ACGGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACGGACCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGAC                                                                                >  2:280266/1‑101 (MQ=0)
                      ACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCGACGGACCCGACCGATCCCACGGACCCGAC                                                                                >  2:2170079/1‑101 (MQ=14)
                      ACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCAGGGACCCGACCGATCCCACGGACCCGAC                                                                                >  2:887602/1‑101 (MQ=9)
                      ACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGCCCGATCCCACGGACCCGAC                                                                                >  1:259172/1‑101 (MQ=9)
                      ACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCGACGGACCCGAC                                                                                >  1:2291837/1‑101 (MQ=0)
                      ACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGAC                                                                                <  1:2932076/101‑1 (MQ=17)
                      ACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACCGACCCGAC                                                                                >  2:1229270/1‑101 (MQ=12)
                       cgcgcCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACc                                                                               <  2:339037/96‑2 (MQ=2)
                       CGGATCCGACGGACCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACc                                                                               <  2:3840162/101‑2 (MQ=0)
                       CGGATCCGACGGACCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACc                                                                               <  2:427768/101‑2 (MQ=0)
                       CGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCGACGGACCCGACCGATCCCACGGACCCGACc                                                                               >  1:1078081/1‑100 (MQ=14)
                       CGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGCCCCGACc                                                                               >  1:836904/1‑100 (MQ=9)
                       CGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACc                                                                               >  1:4397470/1‑100 (MQ=14)
                       CGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACc                                                                               >  2:120846/1‑100 (MQ=14)
                       CGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACc                                                                               >  2:4514794/1‑100 (MQ=14)
                       CGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCACACGGACCCGACCGATCCCACGGACCCGACc                                                                               >  2:1536044/1‑100 (MQ=9)
                        GGATCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACGGACCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACcg                                                                              >  1:3679283/1‑99 (MQ=0)
                        GGACCCGACCGATCCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGCACCCGACCGATCCCACGCACCCGACcc                                                                              >  2:2491112/1‑99 (MQ=0)
                          acCCGACCGATCCCACGGATCCGACCGATCCCACGGATCCGACGGACCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACGGAC                                                                            >  2:2108769/3‑101 (MQ=0)
                          acCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCGACGGACCCGACCGATCCCACGGACCCGACCGAC                                                                            >  1:1533464/3‑101 (MQ=11)
                             CGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACGGACCCc                                                                         >  1:304717/1‑100 (MQ=1)
                             CGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACAGATCCCACGGACCCGACCGATCCCACGGATCCGACGGACCCc                                                                         >  1:2848441/1‑100 (MQ=0)
                              GACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCGACGGACCCGACCGATCCCACGGACCCGACGGACCCcc                                                                        >  2:4724732/1‑99 (MQ=0)
                              GACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCGACGGACCCGACCGATCCCACGGACCCGACCGACCCca                                                                        >  1:699304/1‑99 (MQ=2)
                              GACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCCCGGACCCGACCGACCCGc                                                                        >  1:5145294/1‑100 (MQ=0)
                                                                         CCCACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGATCCGACCGATCC                             <  2:307236/101‑1 (MQ=2)
                                                                           tACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCA                           >  1:963172/2‑101 (MQ=2)
                                                                           tACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCA                           <  2:1638966/100‑1 (MQ=9)
                                                                           tACGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCA                           <  1:5403358/100‑1 (MQ=2)
                                                                             CGGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCACG                         >  2:930288/1‑101 (MQ=9)
                                                                              GGACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGG                        >  1:907104/1‑101 (MQ=255)
                                                                                ACCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGAC                      <  1:3059930/101‑1 (MQ=9)
                                                                                 CCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGACC                     <  1:5340046/101‑1 (MQ=2)
                                                                                 CCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGACC                     <  1:3246326/101‑1 (MQ=2)
                                                                                 CCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGACC                     <  1:930364/101‑1 (MQ=2)
                                                                                  CCGACCGATCCCACGGACCCGACCGATCCCACGGACCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGACCC                    <  1:1247627/101‑1 (MQ=0)
                                                                                  CCGACCGATCCCACGGACCCGACCGATCCCACGGACCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGACCC                    <  1:4109330/101‑1 (MQ=0)
                                                                                  CCGACCGATCCCACGGACCCGACCGATCCCACGGACCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGACCC                    <  1:1969701/101‑1 (MQ=0)
                                                                                  CCGACCGATCCCACGGACCCGACCGATCCCACGGACCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGACCC                    <  1:1742272/101‑1 (MQ=0)
                                                                                   CGACCGATCCCACGGACCCGACCGATCCCACGGACCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGACCCG                   <  1:4470111/101‑1 (MQ=0)
                                                                                   CGACCGATCCCACGGACCCGACCGATCCCACGGACCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGACCCG                   <  1:770623/101‑1 (MQ=0)
                                                                                      CCGATCCCACGGACCCGACCGATCCCACGGACCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGACCCGACC                <  1:254775/101‑1 (MQ=2)
                                                                                      CCGATCCCACGGACCCGACCGATCCCACGGACCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGACCCGACC                <  1:758115/101‑1 (MQ=2)
                                                                                         ATCCCACGGACCCGACCGATCCCACGGACCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGACCCGACCGAc             >  1:2761118/1‑100 (MQ=255)
                                                                                          TCCCACGGACCCGACCGATCCCACGGACCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGACCCGACCGATC            <  1:4027943/101‑1 (MQ=255)
                                                                                          TCCCACGGACCCGACCGATCCCACGGACCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGACCCGACCGATC            <  2:4989381/101‑1 (MQ=255)
                                                                                           CCCACGGACCCGACCGATCCCACGGACCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGACCCGACCGATCC           >  1:3212487/1‑101 (MQ=255)
                                                                                           CCCACGGACCCGACCGATCCCACGGACCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGACCCGACCGATCC           >  2:5038015/1‑101 (MQ=255)
                                                                                           CCCACGGACCCGACCGATCCCACGGACCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGACCCGACCGATCC           <  1:2906832/101‑1 (MQ=255)
                                                                                             CACGGACCCGACCGATCCCACGGACCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCA         <  2:4000597/101‑1 (MQ=255)
                                                                                              cCGGACCCGACCGATCCCACGGACCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCAC        <  1:5400310/100‑1 (MQ=255)
                                                                                              ACGGACCCGACCGATCCCACGGACCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCAC        <  1:2664678/101‑1 (MQ=255)
                                                                                               CGGACCCGACCGATCCCACGGACCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACG       <  2:2554194/101‑1 (MQ=255)
                                                                                                GGACCCGACCGATCCCACGGACCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGG      <  2:1583958/101‑1 (MQ=255)
                                                                                                  ACCCGACCGATCCCACGGACCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGAc    >  2:1584611/1‑100 (MQ=255)
                                                                                                   CCCGACCGATCCCACGGACCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGAcc   <  1:3825396/101‑3 (MQ=255)
                                                                                                                                                                                                         
TCCTACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGACCCGACCGATCC..........................................................................................  <  NC_014034/222066‑221956
....................................................................................................CCGACCGATCCCACGGACCCGACGGACCCGACCGATCCTACGGACCCGACCGATCCCACGGATCCGACCGATCCCACGGACCCGACCGATCCCACGGATCC  <  NC_014034/222090‑222001

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