New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_000913 3255247 =NA (NA)8 (0.080) 4/164 NT NA noncoding (31/103 nt) REP236 (repetitive extragenic palindromic) element; contains 2 REP sequences REP236 (repetitive extragenic palindromic) element; contains 2 REP sequences
?NC_000913 = 4254030 NA (NA)noncoding (130/130 nt) RIP317 (repetitive extragenic palindromic) element; contains 3 REP sequences and 1 IHF site RIP317 (repetitive extragenic palindromic) element; contains 3 REP sequences and 1 IHF site

GATAAACGCCAGGTTTTGGGGATCGTGCCGGATGCGATGCTGGCGCATCTTGTCCGGCCTACGGGTTGTTTAATTCGTTAATGTTGTTGGATTTTGTAGgccggat‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/3255345‑3255247
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GCCGGATGCGGCGAAAACGCCTTATCCGGCCTTCCATAATCTGCAAATTCAATAAATTGCGATGTGTTGTGTAGGCCTGAGAAGCGCCGCGCATCAGGCAACCCAG  <  NC_000913/4254030‑4253925
                                                                                                                                                                                                             
GATAAACGCCAGGTTTTGGGGATCGTGCCGGATGCGATGCTGGCGCATCTTGTCCGGCCTACGGGTTGTTTAATTCGTTAATGTTGTTGGATTTTGTAGG                                                                                                           <  2:217433/100‑1
 ATAAACGCCAGGTTTTGGGGATCGTGCCGGATGCGATGCTGGCGCATCTTGTCCGGCCTACGGGTTGTTTAATTCGTTAATGTTGTTGGATTTTGTAGGC                                                                                                          <  1:1212749/100‑1
  TAAACGCCAGGTTTTGGGGATCGTGCCGGATGCGATGCTGGCGCATCTTGTCCGGCCTACGGGTTGTTTAATTCGTTAATGTTGTTGGATTTTGTAGGCC                                                                                                         >  2:258000/1‑100
   AAACGCCAGGTTTTGGGGATCGTGCCGGATGCGATGCTGGCGCATCTTGTCCGGCCTACGGGTTGTTTAATTCGTTAATGTTGTTGGATTTTGTAGGCCG                                                                                                        <  1:1740553/100‑1
    ttccgatctTTTTGGGGATCGTGCCGGATGCGATGCTGGCGCATCTTGTCCGGCCTACGGGTTGTTTAATTCGTTAATGTTGTTGGATTTTGTAGGCCGG                                                                                                       <  1:141194/91‑1
    AACGCCAGGTTTTGGGGATCGTGCCGGATGCGATGCTGGCGCATCTTGTCCGGCCTACGGGTTGTTTAATTCGTTAATGTTGTTGGATTTTGTAGGCCGG                                                                                                       <  1:1238683/100‑1
    AACGCCAGGTTTTGGGGATCGTGCCGGATGCGATGCTGGCGCATCTTGTCCGGCCTACGGGTTGTTTAATTCGTTAATGTTGTTGGATTTTGTAGGCCGG                                                                                                       >  1:2904781/1‑100
    AACGCCAGGTATTGGGGATCGTGCCGGATGCGATGCTGGCGCATCTTGTCCGGCCTACGGGTTGTTTAATTCGTTAATGTTGTTGGATTTTGTAGGCCGG                                                                                                       <  1:2013094/100‑1
     ACGCCAGGTTTTGGGGATCGTGCCGGATGCGATGCTGGCGCATCTTGTCCGGCCTACGGGTTGTTTAATTCGTTAATGTTGTTGGATTTTGTAGGCCGGA                                                                                                      >  2:785337/1‑100
      CGCCAGGTTTTGGGGATCGTGCCGGATGCGATGCTGGCGCATCTTGTCCGGCCTACGGGTTGTTTAATTCGTTAATGTTGTTGGATTTTGTAGGCCGGAT                                                                                                     <  1:774318/100‑1
             TTTTGGGGATCGTGCCGGATGCGATGCTGGCGCATCTTGTCCGGCCTACGGGTTGTTTAATTCGTTAATGTTGTTGGATTTTGTAGGCCGGAgatcggaa                                                                                              >  2:141196/1‑92
                            CGGATGCGATGCTGGCGCATCTTGTCCGGCCTACGGGTTGTTTAATTCGTTAATGTTGTTGGATTTTGTAGGCCGGATGCGGCGAAAACGCCTTATCCGG                                                                               <  1:2754363/100‑1
                             GGATGCGATGCTGGCGCATCTTGTCCGGCCTACGGGTTGTTTAATTCGTTAATGTTGTTGGATTTTGTAGGCCGGATGCGGCGAAAACGCCTTATCCGGC                                                                              <  1:919849/100‑1
                              GATGCGATGCTGGCGCATCTTGTCCGGCCTACGGGTTGTTTAATTCGTTAATGTTGTTGGATTTTGTAGGCCGGATGCGGCGAAAACGCCTTATCCGGCC                                                                             <  1:2058769/100‑1
                              GATGCGATGCTGGCGCATCTTGTCCGGCCTACGGGTTGTTTAATTCGTTAATGTTGTTGGATTTTGTAGGCCGGATGCGGCGAAAACGCCTTATCCGGCC                                                                             <  2:2730071/100‑1
                              GATGCGATGCTGGCGCATCTTGTCCGGCCTACGGGTTGTTTAATTCGTTAATGTTGTTGGATTTTGTAGGCCGGATGCGGCGAAAACGCCTTATCCGGCC                                                                             <  2:595620/100‑1
                               ATGCGATGCTGGCGCATCTTGTCCGGCCTACGGGTTGTTTAATTCGTTAATGTTGTTGGATTTTGTAGGCCGGATGCGGCGAAAACGCCTTATCCGGCCT                                                                            <  2:1822911/100‑1
                               ATGCGATGCTGGCGCATCTTGTCCGGCCTACGGGTTGTTTAATTCGTTAATGTTGTTGGATTTTGTAGGCCGGATGCGGCGAAAACGCCTTATCCGGCCT                                                                            <  2:2327406/100‑1
                               ATGCGATGCTGGCGCATCTTGTCCGGCCTACGGGTTGTTTAATTCGTTAATGTTGTTGGATTTTGTAGGCCGGATGCGGCGAAAACGCCTTATCCGGCCT                                                                            <  1:1154911/100‑1
                                                                                                   GCCGGATGCGGCGAAAACGCCTTATCCGGCCTTCCATAATCTGCAAATTCAATAAATTGCGATGTGTTGTGTAGGCCTGAGAAGCGCCGCGCATCAGGCA        >  2:486692/1‑100
                                                                                                     CGGATGCGGCGAAAACGCCTTATCCGGCCTTCCATAATCTGCAAATTCAATAAATTGCGATGTGTTGTGTAGGCCTGAGAAGCGCCGCGCATCAGGCAAC      <  2:354376/100‑1
                                                                                                      GGATGCGGCGAAAACGCCTTATCCGGCCTTCCATAATCTGCAAATTCAATAAATTGCGATGTGTTGTGTAGGCCTGAGAAGCGCCGCGCATCAGGCAACC     <  2:1377144/100‑1
                                                                                                       GATGCGGCGAAAACGCCTTATCCGGCCTTCCATAATCTTCAAATTCAATAAATTGCGATGTGTTGTGTAGGCCTGAGAAGCGCCGCGCATCAGGCAACCC    <  1:1663249/100‑1
                                                                                                       GATGCGGCGAAAACGCCTTATCCGGCCTTCCATAATCTGCAAATTCAATAAATTGCGATGTGTTGTGTAGGCCTGAGAAGCGCCGCGCATCAGGCAACCC    <  1:2329931/100‑1
                                                                                                        ATGCGGCGAAAACGCCTTATCCGGCCTTCCATAATCTGCAAATTCAATAAATTGCGATGTGTTGTGTAGGCCTGAGAAGCGCCGCGCATCAGGCAACCCA   <  1:1386883/100‑1
                                                                                                         TGCGGCGAAAACGCCTTATCCGGCCTTCCATAATCTGCAAATTCAATAAATTGCGATGTGTTGTGTAGGCCTGAGAAGCGCCGCGCATCAGGCAACCCAG  >  1:1078637/1‑100
                                                                                                                                                                                                             
GATAAACGCCAGGTTTTGGGGATCGTGCCGGATGCGATGCTGGCGCATCTTGTCCGGCCTACGGGTTGTTTAATTCGTTAATGTTGTTGGATTTTGTAGgccggat‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/3255345‑3255247
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GCCGGATGCGGCGAAAACGCCTTATCCGGCCTTCCATAATCTGCAAATTCAATAAATTGCGATGTGTTGTGTAGGCCTGAGAAGCGCCGCGCATCAGGCAACCCAG  <  NC_000913/4254030‑4253925

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap:     Deleted base: 
Reads not counted as support for junction
read_name Not counted due to insufficient overlap past the breakpoint.
read_name Not counted due to not crossing MOB target site duplication.