New junction evidence
  seq id position reads (cov) reads (cov) score skew annotation gene product
* ? NC_013198 1998770 =NA (NA)4444 (8.869) 109/192 0.3 intergenic (+363/‑314) lciIC/LGG_01955 XRE family transcriptional regulator/reverse transcriptase‑like protein
?NC_013198 = 1998907 NA (NA)intergenic (+500/‑177) lciIC/LGG_01955 XRE family transcriptional regulator/reverse transcriptase‑like protein
Continuation Left: 0  Continuation Right: 0

Only 100 of 1086 total aligned reads displayed.

AGGTTAGGCACAACTTTATTCAGGATGCAAAATATGGTAGACTAAAATTACCGATCCCGATATGATACTATTCGACGTTGGTCGCGGGTGAGACTT.TCGCAATGCCAGCCGCTGGTAATGTCAAGCATATTTGCTCGATAATGCTGTTAGCAAGTGCAGACACGATGTATTTATTCATTTGGCTGTTCTCCTTATGGCTGACTAACGA  >  NC_013198/1998670‑1998877
                                                                                                     |                                                                                                           
 gctcgataatgctgttagcaagtgcagacacgatgtatttattcatttggctgttctccttatggctgactaacgacacaactataatgttaaccactata                                                                                                             >  8:494383‑M1/101‑101
 gctcgataatgctgttagcaagtgcagacacgatgtatttattcatttggctgttctccttatggctgactaacgacacaactataatgttaaccactata                                                                                                             >  22:744901‑M1/101‑101
 gctcgataatgctgttagcaagtgcagacacgatgtatttattcatttggctgttctccttatggctgactaacgacacaactataatgttaaccactata                                                                                                             >  24:564341‑M1/101‑101
 gctcgataatgctgttagcaagtgcagacacgatgtatttattcatttggatgttctccttatggctaactaacgacaaaactataatgttacccactata                                                                                                             >  14:954341‑M1/101‑101
 atgtcaagcatatttgctcgataatgctgttagcaagtgcagacacgatgtatttattcctttggctgttctcctnatggcngactaacgccacaantnta                                                                                                             >  20:184306‑M1/101‑101
 atgtcaagcatatttgctcgataatgctgttagcaagtgcagacacgatgtatttattcatttggctgttctccttatggctgactaacgacacaactata                                                                                                             >  9:1234854‑M1/101‑101
 atgtcaagcatatctcgtcgataatgctgttagcacgtccacacacgatttatttattcatttggctcttctccttatggctgactaacgacacaactata                                                                                                             >  2:1030916‑M1/101‑101
  gttaggCACAACTTTATTCAGGATGCAAAATATGGTAGACTAAAATTACCGATCCCGATATGATACTATTCGACGTTGGTCGCGGGTGAGACTT.TCGCAAt                                                                                                           <  7:380054/101‑1
  ctcgataatgctgttagcaagtgcagacacgatgtatttattcatttggctgttctccttatggctgactaacgacacaactataatgttaaccactataa                                                                                                            >  19:320579‑M1/100‑101
  ctcgataatgctgttagcaagtgcagacacgatgtatttattcatttggctgttctccttatggctgactaacgacacaactataatgttaaccactataa                                                                                                            >  21:816839‑M1/100‑101
  ctcgataatgctgttagcaagtgcagacacgatgtatttattcatttggctgttctccttatggctgactaacgacacaactataatgttaaccactataa                                                                                                            >  23:177059‑M1/100‑101
  ctcgataatgctgttagcaagtgcagacacgatgtatttattcatttggctgttctccttatggctgactaacgacacaactataatgttaaccactataa                                                                                                            >  23:462342‑M1/100‑101
  ctcgataatgctgttagcaagtgcagacacgatgtatttattcatttggctgttctccttatggctgactaacgacacaactataatgttaaccactataa                                                                                                            >  24:937930‑M1/100‑101
  ctcgataatgctgttagcaagtgcagacacgatgtatttattcatttggctgttctccttatggctgactaacgacacaactataatgttaaccactataa                                                                                                            >  3:320579‑M1/100‑101
  ctcgataatgctgttagcaagtgcagacacgatgtatttattcatttggctgttctccttatggctgactaacgacacaactataatgttaaccactataa                                                                                                            >  12:724050‑M1/100‑101
  ctcgataatgctgttagcaagtgcagacacgatgtatttattcatttggctgttctccttatggctgactaacgacacaactataatgttaaccactataa                                                                                                            >  5:20571‑M1/100‑101
  ctcgataatgctgttagcaagtgcagacacgatgtatttattcatttggctgttctccttatggctgactaacgacacaactataatgttaaccactataa                                                                                                            >  11:866915‑M1/100‑101
  ctcgataatgctgttagcaagtgcagacacgatgtatttattcatttggctgttctccttatggctgactaacgacacaactataatgttaaccactataa                                                                                                            >  6:345326‑M1/100‑101
  agtcaagcatatttgctcgataatgctgttagcaagtgcaggcacgatgtatttattcatttggctgttctccttatggctgactaacgacacaactataa                                                                                                            >  25:713342‑M1/100‑101
   tcgataatgctgttagcaagtgcatacactatgtatttattcatttggctgttctccttatggctgactaacgacacaactataatgttaaccactatAAt                                                                                                           >  28:906874‑M1/99‑101
   tcgataatgctgttagcaagtgcagacacgatgtatttattcatttggctgttctccttatggctgactaacgatacaactataatgttaaccactatAAt                                                                                                           >  13:496895‑M1/99‑101
   tcgataatgctgttagcaagtgcagacacgatgtatttattcatttggctgttctccttatggctgactaacgacacaactataatgttaaccactatAAt                                                                                                           >  2:749526‑M1/99‑101
   tcgataatgctgttagcaagtgcagacacgatgtatttattcatttggctgttctccttatggctgactaacgacacaactataatgttaaccactatAAt                                                                                                           >  4:347906‑M1/99‑101
   tcgataatgctgttagcaagtgcagacacgatgtatttattcatttggctgttctccttatggctgactaacgacacaactataatgttaaccactatAAt                                                                                                           >  6:1129431‑M1/99‑101
   tcgataatgctgttagcaagtgcagacacgatgtatttattcatttggctgttctccttatggctgactaacgacacaactataatgttaaccactatAAt                                                                                                           >  1:65750‑M1/99‑101
   tcgataatgctgttagcaagtgcagacacgatgtatttattcatttggctgttctccttatggctgactaacgacacaactataatgttaaccactatAAt                                                                                                           >  1:229347‑M1/99‑101
   tcgataatgctgttagcaagtgcagacacgatgtatttattcatttggctgttctccttatggctgactaacgacacaactataatgttaaccactatAAt                                                                                                           >  9:661170‑M1/99‑101
   tcgataatgctgttagcaagtgcagacacgatgtatttattcatttggctgttctccttatggctgactaacgacacaactataatgttaaccactatAAt                                                                                                           >  15:360270‑M1/99‑101
   tcgataatgctgttagcaagtgcagacacgatgtatttattcatttggctgttctccttatggctgactaacgacacaactataatgttaaccactatAAt                                                                                                           >  17:65750‑M1/99‑101
   tcgataatgctgttagcaagtgcagacacgatgtatttattcatttggctgttctccttatggctgactaacgacacaactataatgttaaccactatAAt                                                                                                           >  10:157385‑M1/99‑101
   gtcaagcatatttgctcgataatgctgttagcaagtgcagacacgatgtatttattcatttggctgttctccttatggctgactaacgacacaactatAAt                                                                                                           >  4:523930‑M1/99‑101
   gtcaagcatatttgctcgataatgctgttagcaagtgcagacacgatgtatttattcatttggctgttctccttatggctgactaacgacacaactatAAt                                                                                                           >  5:660693‑M1/99‑101
   gtcaagcatatttgctcgataatgctgttagcaagtgcagacacgatgtatttattcatttggctgttctccttatggctgactaacgacacaactatAAt                                                                                                           >  28:448231‑M1/99‑101
   gtcaagcatatttgctcgataatgctgttagcaagtgcagacacgatgtatttattcatttggctgttctccttatggctgactaacgacacaactatAAt                                                                                                           >  20:636019‑M1/99‑101
   gtcaagcatatttgctcgataatgctgttagcaagtgcagacacgatgtatttattcatttggctgttctccttatggctgactaacgacacaactatAAt                                                                                                           >  12:21377‑M1/99‑101
   gtcaaacatttttcctcaataaagttgctgccaagtccaaacccaatttatttattcatttggctttactccttatggctgacgaacgccacaactatAAt                                                                                                           >  13:201930‑M1/99‑101
   ccgataatgctgttagcaagtgcagacacgatgtatttattcatttggctgttctccttatggctgactaacgacacaactataatgttaaccactatAAt                                                                                                           >  29:527497‑M1/99‑101
    tcaagcatatttgctctataatgctgttagcaagtgcaaacacgatgtatttattcatttggctgttctccttatggctgactaatgacccatctatAATg                                                                                                          >  26:290291‑M1/98‑101
    tcaagcatatttgctcgataatgctgttagcaagtgcagacacgatgtatttattcatttggctgttctccttatggctgactaacgacacaactatAatt                                                                                                          >  9:426752‑M1/98‑100
    tcaagcatatttgctcgataatgctgttagcaagtgcagacacgatgtatttattcatttggctgttctccttatggctgactaacgacacaactatAatt                                                                                                          >  14:1235756‑M1/98‑100
    tcaagcatatttgctcgataatgctgttagcaagtgcagacacgatgtatttattcatttggctgttctccttatggctgactaacgacacaactatAatt                                                                                                          >  23:1101609‑M1/98‑100
    tcaagcatatttgctcgataatgctgttagcaagtgcagacacgatgtatttattcatttggctgttctccttatggctgactaacgacacaactatAatt                                                                                                          >  2:460213‑M1/98‑100
    tcaagcatatttgctcgataatgctgttagcaagtgcagacacgatgtatttattcatttggctgttctccttatggctgactaacgacacaactatAATg                                                                                                          >  8:836582‑M1/98‑101
    tcaagcatatttgctcgataatgctgttagcaagtgcagacacgatgtatttattcatttggctgttctccttatggctgactaacgacacaactatAATg                                                                                                          >  7:1042006‑M1/98‑101
    tcaagcatatttgctcgataatgctgttagcaagtgcagacacgatgtatttattcatttggctgttctccttatggctgactaacgacacaactatAATg                                                                                                          >  27:1017155‑M1/98‑101
    tcaagcatatttgctcgataatgctgttagcaagtgcagacacgatgtatttattcatttggctgttctccttatggctgactaacgacacaactatAATg                                                                                                          >  23:939377‑M1/98‑101
    tcaagcatatttgctcgataatgctgttagcaagtgcagacacgatgtatttattcatttggctgttctccttatggctgactaacgacacaactatAATg                                                                                                          >  2:270288‑M1/98‑101
    tcaagcatatttgctcgataatgctgttagcaagtgcagacacgatgtatttattcatttggctgttctccttatggctgactaacgacacaacaatAatt                                                                                                          >  26:769489‑M1/98‑100
    taggCACAACTTTATTCAGGATGCAAAATATGGTAGACTAAAATTACCGATCCCGATATGATACTATTCGACGTTGGTCGCGGGTGAGACTT.TCGCAATGc                                                                                                         >  26:1113629/1‑101
    caagcatatttgctcgataatgctgttagcaagtgcagacacgatgtatttatttcatttggctgttctccttatggctgactaacgacacaactatAatt                                                                                                          >  28:1031621‑M1/98‑100
           tatttgctcgataatgctgttagcaagtgcagacacgatgtatttattcatttggctgttctccttatggctgactaacgacacaactatAATGCCAGCCg                                                                                                   >  11:336141‑M1/91‑101
              tttATTCAGGATGCAAAATATGGTAGACTAAAATTACCGATCCCGATATGATACTATTCGACGTTGGTCGCGGGTGAGACTT.TCGCAATGCCAGCCGCTgg                                                                                               <  24:292443/101‑1
               ttATTCAGGATGCAAAATATGGTAGACTAAAATGACCGATCCCGATATGATACTATTCGACGTTGGTCGCGGGTGAGACTT.TCGCAATGCCAGCCGCTGGt                                                                                              <  18:361283/101‑1
                tATTCAGGATGCAAAATATGGTAGACTAAAATTACCGATCCCGATATGATACTATTCGACGTTGGTCGCGGGTGAGACTT.TCGCAATGCCAGCCGCTGGTa                                                                                             <  30:139694/101‑1
                    cAGGATGCAAAATATGGTAGACTAAAATTACCGATCCCGATATGATACTATTCGACGTTGGTCGCGGGTGAGACTT.TCGCAATGCCAGCCGCTGGTAATGt                                                                                         >  27:434459/1‑101
                        aTGCAAAATATGGTAGACTAAAATTACCGATCCCGATATGATACTATTCGACGTTGGTCGCGGGTGAGACTT.TCGCAATGCCAGCCGCTGGTAATGTCAAg                                                                                     >  31:683686/1‑101
                         cagacacgatgtatttattcatttggctgttctccttatggctgactaacgacacaactataatgttaaccactatAATGCCAGCCGCTGGTAATGTCAAg                                                                                     >  1:1002850‑M1/77‑101
                                  tGGTAGACTAAAATTACCGATCCCGATATGATACTATTCGACGTTGGTCGCGGGTGAGACTT.TCGCAATGCCAGCCGCTGGTAATGTCAAGCATATTTGCt                                                                           <  6:70855/101‑1
                                   ggTAGACTAAAATTACCGATCCCGATATGATACTATTCGACGTTGGTCGCGGGTGAGACTT.TCGCAATGCCAGCCGCTGGTAATGTCAAGCATATTTGCTc                                                                          >  14:346273/1‑101
                                      aGACTAAAATTACCGATCCCGATATGATACTATTCGACGTTGGTCGCGGGTGAGACTT.TCGCAATGCCAGCCGCTGGTAATGTCAAGCATATTTGCTCGAt                                                                       >  10:573568/1‑101
                                       gACTAAAATTACCGATCCCGATATGATACTATTCGACGTTGGTCGCGGGTGAGACTT.TCGCAATGCCAGCCGCTGGTAATGTCAAGCATATTTGCTCGATa                                                                      <  21:514214/101‑1
                                         attcatttggctgttctccttatggctgactaacgacacaactataatgttaaccactatAATGCCAGCCGCTGGTAATGTCAAGCATATTTGCTCGATaa                                                                     >  5:477546‑M1/61‑101
                                           aaaaTTACCGATCCCGATATGATACTATTCGACGTTGGTCGAGGGTGAGACTT.TCGCAATGTCAGCCGCCGGTACTGTCAAGCATATGTGCTGGATAATGc                                                                  >  18:851204/1‑101
                                                tggctgttctccttatggctgactaacgacacaactataatgttaaccactatAATGCCAGCCGCTGGTAATGTCAAGCATATTTGCTCGATAATGCTGtt                                                              >  30:40400‑M1/54‑101
                                                 aCCGATCCCGATATGATACTATTCGACGTTGGTCGCGGGTGAGACTT.TCGCAATGCCAGCCGCTGGTAATGTCAAGCATATTTGCTCGATAATGCTGTTAg                                                            <  15:823745/101‑1
                                                  gtatttattcatttggctgttctccttatggctgactaacgacacaactatAATGCCAGCCGCTGGTAATGTCAAGCATATTTGCTCGATAATGCTGTTAg                                                            >  21:285298‑M1/52‑101
                                                  gctgttctccttatggctgactaacgacacaactataatgttaaccactatAATGCCAGCCGCTGGTAATGTCAAGCATATTTGCTCGATAATGCTGTTAg                                                            >  31:453482‑M1/52‑101
                                                   tatttattcatttggctgttctccttatggctgactaacgacacaactatAATGCCAGCCGCTGGTAATGTCAAGCATATTTGCTCGATAATGCTGTTAGc                                                           >  22:405391‑M1/51‑101
                                                   cGATCCCGATATGATACTATTCGACGTTGGTCGCGGGTGAGACTT.TCGCAATGCCAGCCGCTGGTAATGTCAAGCATATTTGCTCGATAATGCTGTTAGCa                                                          <  4:1073942/101‑1
                                                       cccGATATGATACTATTCGACGTTGGTCGCGGGTGAGACTT.TCGCAATGCCAGCCGCTGGTAATGTCAAGCATATTTGCTCGATAATGCTGTTAGCAAGTg                                                      <  31:975836/101‑1
                                                           atatGATACTATTCGACGTTGGTCGCGGGGGAGACTT.TCGCAATGCCAGCCGCTGGTAATGTCAAGCATATTTGCTCGATAATGCTGTTAGCAATTGCAGa                                                  >  4:956260/1‑101
                                                             tttggctgttctccttatggctgactaacgacacaactatAATGCCAGCCGCTGGTAATGTCAAGCATATTTGCTCGATAATGCTGTTAGCAAGTGCAGac                                                 >  27:138082‑M1/41‑101
                                                             tatggctgactaacgacacaactataatgttaaccactatAATGCCAGCCGCTGGTAATGTCAAGCATATTTGCTCGATAATGCTGTTAGCAAGTGCAGac                                                 >  17:1023832‑M1/41‑101
                                                                ggctgactaacgacacaactataatgttaaccactatAATGCCAGCCGCTGGTAATGTCAAGCATATTTGCTCGATAATGCTGTTAGCAAGTGCAGACACg                                              >  3:1182319‑M1/38‑101
                                                                ggctgactaacgacacaactataatgttaaccactatAATGCCAGCCGCTGGTAATGTCAAGCATATTTGCTCGATAATGCTGTTAGCAAGTGCAGACACg                                              >  19:1182319‑M1/38‑101
                                                                    gactaacgacacaactataatgttaaccactatAATGCCAGCCGCTGTTAATGTCAAGCATATTTGCTCGATAATGCTGTTAGCAAGTGCAGACACGATGt                                          >  20:370586‑M1/34‑101
                                                                     aTTCGACGTTGGTCGCGGGTGAGACTT.TCGCAATGCCAGCCGCTGGTAATGTCAAGCATATTTGCTCGATAATGCTGTTAGCAAGTGCAGACACGATGtat                                        <  11:1163640/101‑1
                                                                      ttCGACGTTGGTCGCGTGTGAGACTT.TCGCAATGCCAGCCGCTGGTAATGTCAAGCATATTTGCTCGATAATGCTGTTAGCAAGTGCAGACACGATGtatt                                       <  18:518711/101‑1
                                                                       tCGACGTTGGTCGCGGGTGAGCCTG.TCGCAATGCCAGCCGCTGGTAATGTCAAGCATATTTGCTCGATAATGCTGTTAGCAAGTGCAGACACGATGtattt                                      <  29:1201016/101‑1
                                                                       gcGATGTTGGTCGCTGGTGAGACTC.TCGCAATGCCAGCCGCTGGTAATGTCGACCATATTGGGTCGATAATGCTGTTAGCATGTGCAGCCACGATGtattt                                      <  15:581973/100‑1
                                                                        aacgacacaactataatgttaaccactatAATGCCAGCCGCTGGTAATGTCAAGCATATTTGCTCGATAATGCTGTTAGCAAGTGCAGACACGATGtattt                                      >  25:163470‑M1/30‑101
                                                                        aacgacacaactataatgttaaccactatAATGCCAGCCGCTGGTAATGTCAAGCATATTTGCTCGATAATGCTGTTAGCAAGTGCAGACACGATGtattt                                      >  22:149426‑M1/30‑101
                                                                         gACGTTGGTCGCGGGTGAGACTT.TCGCAATGCCAGCCGCTGGTAATGTCAAGCATATTTGCTCGATAATGCTGTTAGCAAGTGCAGACACGATGtatttat                                    <  29:277887/101‑1
                                                                            gTTGGTCGCGGGTGATACTT.TCGCAATGCCAGCCGCTGGTAATGTCAAGCATATTTGCTCGATAATGCTGTTAGCAAGTGCAGACACGATGTATTTATTCa                                 <  30:1059586/101‑1
                                                                              tGGTCGCGGGTGAGACTT.TCGCAATGCCAGCCGCTGGTAATGTCAAGCATATTTGCTCGATAATGCTGTTAGCAAGTGCAGACACGATGTATTTATTCAtt                               <  30:662115/101‑1
                                                                                   gcgGGTGAGACTT.TCGCAATGCCAGCCGCTGGTAATGTCAAGCATATTTGCTCGATAATGCTGTTAGCAAGTGCAGACACGATGTATTTATTCATTTGGCt                          <  13:115952/101‑1
                                                                                     gggTGAGACTT.TCGCAATGCCAGCCGATGGTAATGACAAGCAAATTTGCTCGATAATACTGTTAGAAAGTGCAAACAAGATGTATTTATTATTTTGTCTGt                        >  7:1227512/1‑101
                                                                                        tGAGACTT.TCGCAATGCCAGCCGCTGGTAATGTCAAGCATATTTGCTCGATAATGCTGTTAGCAAGTGCAGACACGATGTATTTATTCATTTGGCTGTtct                     <  1:900834/101‑1
                                                                                        tGAGACTT.TCGCAATGCCAGCCGCTGGTAATGTCAAGCATATTTGCTCGATAATGCTGTTAGCAAGTGCAGACACGATGTATTTATTCATTTGGCTGTtct                     <  17:900834/101‑1
                                                                                         gttaaccactatAATGCCAGCCGCTGGTAATGTCAAGCATATTTGCTCGATAATGCTGTTAGCAAGTGCAGACACGATGTATTTATTCATTTGGCTGTtct                     >  17:31355‑M1/13‑101
                                                                                          ggaCTTCTCGTAATGCGCGCCGGTGATAATCTCTCGCATATTTGCTCGATAATGCTGTTAGCAAGTCCAGACACGATGTATTTATTCATTTGGCTGTtctc                    <  14:523574/100‑1
                                                                                           gaCTT.TCGCAATGCCAGCCGCTGGTAATGTCAAGCATATTTGCTCGATAATGCTGTTAGCAAGTGCAGACACGATGTATTTATTCATTTGGCTGTTCTCCt                  >  8:1180879/1‑101
                                                                                           acacaactatAATGCCAGCCGCTGGTAATGTCAAGCATATTTGCTCGATAATGCTGTTAGCAAGTGCAGACACGATGTATTTATTCATTTGGCTGTTCTcc                   >  31:1228386‑M1/11‑101
                                                                                            aCTT.TCGCAATGCCAGCCGCTGGTAATGTCAAGCATATTTGCTCGATAATGCTGTTAGCAAGTGCAGACACGATGTATTTATTCATTTGGCTGTTCTCCtt                 >  21:1082947/1‑101
                                                                                            aCTT.TCGCAATGCCAGCCGCTGGTAATGTCAAGCATATTTGCTCGATAATGCTGTTAGCAAGTGCAGACACGATGTATTTATTCATTTGGCTGTTCTCCtt                 <  13:940613/101‑1
                                                                                             accactatAATGCCAGCCGCTGGTAATGTCAAGCATATTTGCTCGATAATGCTGTTAGCAAGTGCAGACACGATGTATTTATTCATTTGGCTGTTCTCCtt                 >  7:781009‑M1/9‑101
                                                                                              tt.tCGCAAGGCCAGTCGCTGGTAATGTCAAGCATATTTGCTCGATAATGCTGTTAGCAAGTGCAGACACGATGTATTTATTCATTTGGCTGTTCTCCTTAt               <  10:943218/101‑1
                                                                                               aactatAATGCCAGCCGCTGGTAATGTCAAGCATATTTGCTCGATAATGCTGTTAGCAAGTGCAGACACGATGTATTTATTCATTTGGCTGTTCTCCTTAt               >  25:443787‑M1/7‑101
                                                                                                  tatAATGCCAGCCGCTGGTAATGTCAAGCATATTTGCTCGATAATGCTGTTAGCAAGTGCAGACACGATGTATTTATTCATTTGGCTGTTCTCCTTATGGc            >  18:1092845‑M1/4‑101
                                                                                                   gCAATGCCAGCCGCTGGTAATGTCAAGCATATTTGCTCGATAATGCTGTTAGCAAGTGCAGACACGATGTATTTATTCATTTGGCTGTTCTCCTTATGGCt           <  10:1034754/101‑1
                                                                                                     |                                                                                                           
AGGTTAGGCACAACTTTATTCAGGATGCAAAATATGGTAGACTAAAATTACCGATCCCGATATGATACTATTCGACGTTGGTCGCGGGTGAGACTT.TCGCAATGCCAGCCGCTGGTAATGTCAAGCATATTTGCTCGATAATGCTGTTAGCAAGTGCAGACACGATGTATTTATTCATTTGGCTGTTCTCCTTATGGCTGACTAACGA  >  NC_013198/1998670‑1998877

Base quality scores:  ATCG  < 3 ≤  ATCG  < 21 ≤  ATCG  < 30 ≤  ATCG  < 35 ≤  ATCG  < 41 ≤  ATCG