New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_000913_3_pae_pgi 4218556 =64 (1.210)6 (0.110)
+T		 6/268 NT 8.6% noncoding (121/132 nt) REP311 (repetitive extragenic palindromic) element; contains 3 REP sequences REP311 (repetitive extragenic palindromic) element; contains 3 REP sequences
?NC_000913_3_pae_pgi = 4253277 NA (NA)noncoding (117/130 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

AAAATGGTTTGAGCAATCAATAATTCCAGGCCACGCGGCATTTAGCGCCCTCATCAGGAGCAGAGAATTGCCGGATGCGGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913_3_pae_pgi/4218636‑4218556
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑AAAACGCCTTATCCGGCCTTCCATAATCTGCAAATTCAATAAATTGCGATGTGTTGTGTAGGCCTGAGAAGCGCCGCGCATCAGGCAACCCAGAAGAAAGCCGGATGA  <  NC_000913_3_pae_pgi/4253277‑4253170
                                                                                 |                                                                                                            
AAAATGGTTCTAGCAAGTAATTATTCCAGGCCAGGCGGCATGTAGTGCCGTCATCAGGAGGAGAGAATTGCCGGATGCGGCTAAAACGCCTTATCCGGCCTTCCATAATCTGCAAATTCAATAAATTGCGATGTGTTGTGTAGGCCTGA                                           <  2:731821/149‑1
 AAATGTGTTGAGCAATCAATAATTCCAGGCCACGCGGCATTTACCGCCCTCATCAGGAGCAGAGAATTGCCGGATGCGGCTAAAACGCCTTATCCGGCCTTCCATAATCTGCAAATTCAATAAATTGCGATGTGTTGTGTAGGCCTGAG                                          <  2:47210/149‑1
       TTTGAGCAATCAATAATTCCAGGCCACGCGGCATTTAGCGCCCTCATCAGGAGCAGAGAATTGCCGGATGCGGCTAAAACGCCTTCTCCGGCCTTCCATAATCTGCAAATTCAATAAATTGCGATGTGTTGTGTAGGCCTGAGAAGCGC                                    >  1:893546/1‑149
                  AATAATTCCATGCCACTCGGCATGTAGCGACCTCATCAGGATCATAGAATCGCCGGATGCGGCTAAAACGCCTTATCCGGCCTTACATAATCTGCAAATTCAATAAATTGCGATGTGTTGTGTAGGCCTGAGAAGCGCCGCGCATCAGG                         <  2:628599/149‑1
                            GGCCACGCGGCATTTAGCGCCCTCATCAGGAGCAGAGAATTGCCGGATGCGGCTAAAACGCCTTATCCGGCCTTCCATAATCTGCAAATTCAATAAATTGCGATGTGTTGTGTAGGCCTGAGAAGCGCCGCGCATCAGGCAACCCAGAA               <  1:90538/149‑1
                                         aTAGCGCCCTCATCATGAACAGAGAATTGGCGGATGCGGCTAAAACGCCTTATACGGCATTTCATAATCTGCAAATTCAATAAATTGCCATGTGTTGTGTAGGCCTGAGAAGCGCCGCGCATCAGGCAATCCAGAAGAAAGCCGGATGA  <  2:501187/148‑1
                                                                                 |                                                                                                            
AAAATGGTTTGAGCAATCAATAATTCCAGGCCACGCGGCATTTAGCGCCCTCATCAGGAGCAGAGAATTGCCGGATGCGGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913_3_pae_pgi/4218636‑4218556
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑AAAACGCCTTATCCGGCCTTCCATAATCTGCAAATTCAATAAATTGCGATGTGTTGTGTAGGCCTGAGAAGCGCCGCGCATCAGGCAACCCAGAAGAAAGCCGGATGA  <  NC_000913_3_pae_pgi/4253277‑4253170

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ 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.