New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_014034 = 218597813 (0.060)18 (0.080) 12/192 21.4 0.34 intergenic (+251/‑254) mtlK/RCAP_rcc02028 mannitol 2‑dehydrogenase/FeoA family protein
?NC_014034 2330300 = 56 (0.230)intergenic (+275/+37) RCAP_rcc02161/mrcA hypothetical protein/penicillin‑binding protein 1A
Rejected: Position hash score below cutoff.

GCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCCGGG..G....G....CCCCCGGCGGGTCGCCGAGG.CATCGCCTCGGCGAAATCCCTTAGTAAAG.ACCGCCCGCGGA.CAGGGATCCGAAGGTCGCCTTCTTCGGGATCACCCGCTGTTCC  >  NC_014034/2330213‑2330400
                                                                                                 |                                                                                                       
gCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG....CCCCCGGCGGGTc                                                                                                <  2:3977837/101‑1 (MQ=25)
gCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG....CCCCCGGCGGGTc                                                                                                <  2:4527515/101‑1 (MQ=25)
   ggggCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAGCCCGGGGGTCCGGGG..GCGGAG....CCCCCGGCGGGGCGcc                                                                                             >  1:3519875/1‑101 (MQ=25)
    gggCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG....CCCCCGGCGGGGCGCCg                                                                                            >  1:3734938/1‑101 (MQ=25)
        gcgcATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG....CCCCCGGCGGGTCGCCGAGG.c                                                                                       <  1:4047848/101‑1 (MQ=25)
          gcATGCGGGGCCCCGGATCCCCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG....CCCCCGGCGGGTCGCCGAGG.CAt                                                                                     <  2:2842084/101‑1 (MQ=21)
          gcATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG....CCCCCGGCGGGGCGccccgggga                                                                                      >  2:4490551/1‑94 (MQ=18)
          gcATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG....CCCCCGGCGGGGCGCCGCgggcc                                                                                      >  1:1916078/1‑98 (MQ=21)
           cATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG....CCCCCGGCGGGGGGCCGGGG.Cagc                                                                                    >  2:2963620/1‑99 (MQ=21)
              gCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG....CCCCCGGCGGGTCGCCGAGG.CATCGcc                                                                                 <  2:4189205/101‑1 (MQ=25)
              gCGGGCCCCCGGATCCCCGGCGGCCCGGGCGGCTTCCACCTGGGCCCAAAGACCCCGGGGGTCCGGGG..GCGGAG....CCCCCGGCGGGTCGCCGAGG.CATCGcc                                                                                 <  2:1126476/101‑1 (MQ=17)
               gggggCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG....CCCCCGGCGGGTCGCCGAGG.CATCGCCt                                                                                <  2:1949216/100‑1 (MQ=21)
               cGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG....CCCCCGGCGGGTCGCCGAGG.CATCGCCt                                                                                <  2:4871098/101‑1 (MQ=25)
                ggggCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG....CCCCCGGCGGGTCGCCGAGG.CATCGCCTc                                                                               <  2:3760319/101‑1 (MQ=25)
                    ccccGGATCCCCGGCGGCCCGGGCGTCTCTCCCGGGGGGCAAAAGCCCCGGGGGGTCGGGGGGCG....GCC..CCCCCGGCGGGTCTCCGAGG.CATCGCCTCGGCg                                                                           <  2:4648946/101‑1 (MQ=255)
                      ccGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG....CCCCCGGCGGGTCGCCGAGG.CATCGCCTCGGCGaa                                                                         <  2:2423393/101‑1 (MQ=25)
                       cGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG....CCCCCGGCGGGGCGCCCGGG.CCTCGCCCCCGCGgaa                                                                        >  1:208004/1‑101 (MQ=12)
                          aTCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG....CCCCCGGCGGGGCGCCCGGG.GAGCGCCCCGGGGaaaaac                                                                     >  1:2965108/1‑98 (MQ=9)
                           tCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG....CCCCCGGCGAGTCGCCGAGG.CATCGCCTCGGCGAAATccc                                                                    <  1:4493882/101‑1 (MQ=25)
                           tCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGCCCGGGG..GCGGAG....CCCCCGGCGGGTCGCCGAGG.CATCGCCTCGGCGAAATccc                                                                    <  2:3129602/101‑1 (MQ=21)
                           ccccgggcggcCGGGGCGGCTTTCCCCGGGGCCAAAAGACCCGGGGGGCCGGGGG..G....GGGGCCCCCCGGCGGGTCGCCGAGG.CATCGCCTCGGCGAAATccc                                                                    <  1:2606103/96‑1 (MQ=12)
                             gcgggcggcCCGGGCGTGTTTCCCCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG....CCCCCGGCGGGTCGCCGAGG.CATCGCCTCGGCGAAATCCCtt                                                                  <  2:175083/98‑1 (MQ=18)
                             cccGGCGGCCGGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG....CCCCCGGCGGGTCGCCGAGG.CATCGCCTCGGCGAAATCCCtt                                                                  <  2:4152876/100‑1 (MQ=21)
                             aCCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGACCCCGGGGGGCCGGGG..GCGGAG....CCACCGGCGGGTCGCCGAGG.CATCGCCTCGGCGAAATCCCtt                                                                  <  1:3310859/101‑1 (MQ=255)
                               cggcggCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG....CCCCCGGCGGGTCGCCGAGG.CATCGCCTCGGCGAAATCCCTTAg                                                                <  2:564892/101‑1 (MQ=25)
                                ggcggcCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG....CCCCCGGCGGGCCGCCGCGGCCACCCCCCGGGCGAAACCCCttgt                                                                >  2:3903631/1‑99 (MQ=9)
                                  cggcCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG....CCCCCGGCGGGTCGCCGAGG.CATCGCCTCGGCGAAATCCCTTAGTaa                                                             <  2:740959/101‑1 (MQ=25)
                                    gcCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG....CCCCCGGCGGGTCGCCGAGG.CATCGCCTCGGCGAAATCCCTTAGTAAAg                                                           <  1:4739205/101‑1 (MQ=21)
                                    gcCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG....CCCCCGGCGGGGCGCCGGGG.CAGCGCCCCGGCGGAATCCCCTAGTaaaa                                                           >  2:466379/1‑100 (MQ=12)
                                     ccggggCGGCTTTCACCGGGGCCCAAAGACCCCGGGGGTCGGGGG..GCGGAG....CCCCCGGCGGGTCGCCGAGG.CATCGCCTCGGCGAAATCCCTTAGTAAAG.a                                                         <  2:3215778/98‑1 (MQ=18)
                                       cGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG....CCCCCGGCGGGTCGCCGAGG.CATCGCCTCGGCGAAATCCCTTAGTAAAG.Acc                                                       <  1:4636947/101‑1 (MQ=25)
                                        gggCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG....CCCCCGGCGGGGGGCCGAGG.CGTCGCCTCGGCGGAAACCCCTAGTAAAA.Accc                                                      >  1:2168820/1‑100 (MQ=12)
                                           cggcTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG....CCCCCGGCGGGTCGCCGAGG.CATCGCCTCGGCGAAATCCCTTAGTAAAG.Accgccc                                                   <  2:446753/101‑1 (MQ=25)
                                           cggcTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG....CCCCCGGCGGGGCGCCGGGG.CATCGCCTCCGCCAAAAACCCTAGTaaaaaaccccc                                                    >  1:3392046/1‑93 (MQ=9)
                                             gcTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG....CCCCCGGCGGGGCGCCGCGG.CAACGCCCCCGCGGAAACCCCTAGTAAAA.Accgcccgc                                                 >  1:3910916/1‑101 (MQ=9)
                                               tttCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG....CCCCCGGCGGGGGGCCGGGG.GCGCGCTTCGGCGGAATTCCCTAGTAACG.aacctccgccg                                               >  2:4889942/1‑91 (MQ=2)
                                               tttCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG....CCCCCGGCGGGGCGCCGGGG.CCACGCCCCCGCGAAAACCCTTATTAAAA.Acaaaccccgg                                               >  2:4216937/1‑92 (MQ=2)
                                                 tCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG....CCCCCGGCGGGGGGCCGAGG.CGTCGCCTCGGCGGAAACCCCTAGTAAAGAACCCCCcgcgac                                              >  2:1178479/1‑99 (MQ=9)
                                                 cgaCCTGGGCCGAAAGATCCCGGGGGTCCGGGG..GCGGAG....CCCCCGGCGGGTCGCCGAGG.CATCGCCTCGGCGAAATCCCTTAGTAAAG.ACCGCCCGCGGA.c                                            <  2:1501919/99‑1 (MQ=18)
                                                  cACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG....CCCCCGGCGGGGCGCCCGGG.GATCGCCCCCGCGGAAACCCCTTGTAAAA.Aacgcccgccggca                                            >  2:3665165/1‑96 (MQ=2)
                                                     cTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG....CCCCCGGCGGGTCGCCGAGG.CATCGCCTCGGCGAAATCCCTTAGTAAAG.ACCGCCCGCGGA.CAggg                                        <  2:2198929/101‑1 (MQ=21)
                                                     cTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG....CCCCCGGCGGGGCGCCGCGG.GATCGCCTCCGCCGAAACCCCTCGTAAAA.Aacgccccccgggcagg                                         >  1:1913742/1‑91 (MQ=0)
                                                       ggggCCAAAGATCCCGGGGGTCCGGGG..GCGGAG....CCCCCGGCGGGGGGCCGGGG.CCTCGCCCCGGCGAAAACCCCTAGTAAAA.ACCGACCCCGGG.CACGGaa                                      >  2:420162/1‑100 (MQ=2)
                                                        gggCCAAAGATCCCGGGGGTCCGGGG..GCGGAG....CCCCCGGCGGGGGGGCCGGG.CATCGCCCCGGGGGAAACCCTTCGTTAAG.AACGCCCCCGGG.CAGGGGTc                                     >  1:2476392/1‑101 (MQ=2)
                                                         ggCCAAAGATCCCGGGGGTCCGGGG..GCGGAG....CCCCCGGCGGGTCGCCGAGG.CATCGCCTCGGCGAAATCCCTTAGTAAAG.ACCGCCCGCGGA.CAGGGATcc                                    <  2:4305162/101‑1 (MQ=21)
                                                          gCCAAAGACCCCGGGGGTCGGGGG..GCGGAG....CCCCCGGCGGGTCGCCGAGG.CATCGCCTCGGCGAAATCCCTTAGTAAAG.ACCGCCCGCGGA.CAGGGATCCg                                   <  1:1618085/101‑1 (MQ=21)
                                                            cAAAGATCCCGGGGGTCCGGGG..GCGGAG....CCCCCGGCGGGGCGCCGGGG.GATCGCCTCGGCGGAAACCCTTTTTTAAA.ACCGCCCCCGGG.CAGGGAGCCGaa                                 >  1:4519947/1‑101 (MQ=2)
                                                              aaGATCCCGGGGGTCCGGGG..GCGGAG....CCCCCGGCGGGGCGCCGCGG.CATCGCCTCCGCGAAATCCCTTAGTAAAA.AACGCCCCCGGACCAGGGA.CCGAAgg                               >  2:2982340/1‑101 (MQ=9)
                                                               aGATCCCGGGGGTCCGGGG..GCGGAG....CCCCCGGCGGGGCGCCGAGG.CATCGCCCCGGCGGAAACCCTTAGTAAAA.ACCGCCCGCGGG.CAAGGGTCCGAAggc                              >  2:397724/1‑100 (MQ=12)
                                                               aGATCCCGGGGGTCCGGGG..GCGGAG....CCCCCGGCGGGGCGCCCAGG.CCCCGCCCCCGCGAAAACCCCTAGTAAAA.ACCCCCCGCGGG.CAGGGAACCGAAggg                              >  1:3241033/1‑100 (MQ=2)
                                                                           gggccgg..g....g....CCCCCGGCGGGTCGCCGAGG.CATCGCCTCGGCGAAATCCCTTAGTAAAG.ACCGCCCGCGGA.CAGGGATCCGAAGGTCGCCTTCTTCGGGATc              <  2:2894652/96‑1 (MQ=255)
                                                                               cgggggcggag....CCCCCGGCGGGTCGCCGAGG.CATCGCCTCGGCGAAATCCCTTAGTAAAG.ACCGCCCGCGGA.CAGGGATCCGAAGGTCGCCTTCTTCGGGa                <  1:4970217/91‑1 (MQ=255)
                                                                                gggggcggag....CCCCCGGCGGGTCGCCGAGG.CATCGCCTCGGCGAAATCCCTTAGTAAAG.ACCGCCCGCGGA.CAGGGATCCGAAGGTCGCCTTCTTCGGGAt               <  2:2964880/92‑1 (MQ=255)
                                                                                gg..g....g....CCCCCGGCGGGTCGCCGAGG.CATCGCCTCGGCGAAATCCCTTAGTAAAG.ACCGCCCGCGGA.CAGGGATCCGAAGGTCGCCTTCTTCGGGATCACCCg         <  1:200422/101‑1 (MQ=255)
                                                                                    gcggag....CCCCCGGCGGGTCGCCGAGG.CATCGCCCCGGCGAAAACCCCTAATAAAA.ACCGCCCCCGGA.CAGGGATCCGAAGGGCGCCTTCTTCGGGGTCAcc           >  2:4545248/6‑101 (MQ=25)
                                                                                     cggag....CCCCCGGCGGGTCCCCGAGG.GACCTCCTCGGGGAAATCCCTTAGTAAAG.ACCGCCCGCCGA.CAGGGATCCGAAGGGCGCCTTTTTCGGGATAAccc          >  2:883066/5‑101 (MQ=255)
                                                                                     cggag....CCCCCGGCGGGGCGCCGAGG.CATCGCCTCGGCGAAATCCCTTAGTAAAG.ACCGCCCGCGGA.CAGGGATCCGAAGGGCGCCTTCTTCGGGGTCAccc          >  2:2994880/5‑101 (MQ=39)
                                                                                      ggag....CCCCCGGCGGGTCGCCGAGG.CATCGCCTCGGCGAAATCCCTTAGTAAAG.ACCGCCCGCGGA.CAGGGATCCGAAGGTCGCCTTCTTCGGGATCACCCg         <  1:4553362/98‑1 (MQ=255)
                                                                                      ggag....CCCCCGGCGGGTCGCCGAGG.CATCGCCTCGGCGAAATCCCCTAGTAAAG.ACCGCCCGCGGA.CAGGGATCCGAAGGTCGCCTTCTTCGGGATCACCCg         >  2:2604041/4‑101 (MQ=255)
                                                                                      ggag....CCCCCGGCGGGGCGCCGAGG.CATCGCCCCGGCGAAAACCCTTAGTAAAG.ACCGCCCGCGGG.CAGGGATCCGAAGGGCGCCTTCTTCGGGATCACCCg         >  2:4919707/4‑101 (MQ=255)
                                                                                       gag....CCCCCGGCGGGTCGCCGAGG.CATCGCCTCGGCGAAATCCCTTAGTAAAA.AACGCCCGCGGG.CAGGGATCCGAAGGTCGCCTTCTTCGGGATCAccccc        >  2:3319072/3‑99 (MQ=38)
                                                                                        gcggaccccccGGCGGGTCGCCGAGG.CATCGCCTCGGCGAAATCCCTTAGTAAAG.ACCGCCCGCGGA.CAGGGATCCGAAGGTCGCCTTCTTCGGGATCAcc           <  2:2833715/95‑1 (MQ=255)
                                                                                         g....CCCCCGGCGGGTCGCCGAGG.CATCGCCCCGGCGAAATCCCTTAGTAAAA.ACCGCCCGCGGA.CAGGGGTCCGAAGGGCGCCTTCTTCGGGGTCAcccccct      >  2:728872/1‑97 (MQ=38)
                                                                                             ccccccGGCGGGTCGCCGAGG.CATCGCCTCGGCGAAATCCCTTAGTAAAG.ACCGCCCGCGGA.CAGGGATCCGAAGGTCGCCTTCTTCGGGATCACCCGCTg      <  1:1348316/100‑1 (MQ=255)
                                                                                              cccccGGCGGGTCGCCGAGG.CCTCGCCCCGGCGAAAACCCCTTTTAAAG.ACCGCCCCCGGG.CAGGGAGCCGCAGGGGGCCCTCTTTCGGGGCACCCCCTGt     >  2:1737533/1‑101 (MQ=255)
                                                                                              cccccGGCGGGTCGCCGAGG.CATCGCCTCGGCGAAATCCCTTAGTAAAG.ACCGCCCGCGGA.CAGGGATCCGAAGGTCGCCTTCTTCGGGATCACCCGCTGt     <  2:2034616/101‑1 (MQ=255)
                                                                                                 ccGGCGGGTCGCCGAGG.CATCGCCTCGGCGAAATCCCTTAGTAAAG.ACCGCCCGCGGA.CAGGGATCCGAAGGTCGCCTTCTTCGGGATCACCCGCTGTTcc  <  2:4802628/101‑1 (MQ=255)
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GCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCCGGG..G....G....CCCCCGGCGGGTCGCCGAGG.CATCGCCTCGGCGAAATCCCTTAGTAAAG.ACCGCCCGCGGA.CAGGGATCCGAAGGTCGCCTTCTTCGGGATCACCCGCTGTTCC  >  NC_014034/2330213‑2330400

Base quality scores:  ATCG  < 3 ≤  ATCG  < 15 ≤  ATCG  < 23 ≤  ATCG  < 33 ≤  ATCG  < 40 ≤  ATCG