New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_000913_3_pae_pgi 3908414 =NA (NA)5 (0.110) 5/242 NT 9.1% noncoding (28/64 nt) REP283 (repetitive extragenic palindromic) element; contains 2 REP sequences REP283 (repetitive extragenic palindromic) element; contains 2 REP sequences
?NC_000913_3_pae_pgi = 4613614 50 (1.050)noncoding (98/388 nt) REP352 (repetitive extragenic palindromic) element; contains 8 REP sequences REP352 (repetitive extragenic palindromic) element; contains 8 REP sequences

TTTTGCGAAGAATAAACACGGTTGATATTGCTGACACGGTTTTCCCCTCACCCTAACCCTCTCCCCAGAGGGGCGAGGGGACCGACCGAGCGCCTTTTTGACTCTGTACACGGTTAACACTTTGCCGGATGCGGCGTGAACGCCTGATCCGGCCTACGGT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913_3_pae_pgi/3908573‑3908414
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑atccggcctacggtTCGGCACAAACCTGTAGGCATGATAAGACGCGTTAAGCGTCGCATCAGGCATTGTGCGCCAACTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGGCACGTTAAACAACGTATACGTGTTATTAAGCAACGCTTGCGCAATC  <  NC_000913_3_pae_pgi/4613614‑4613469
                                                                                                                                                                                                                                                                                                                  
TTTTGCGAAGAATAAACACGGTTGATATTGCTGACACGGTTTTCCCCTCACCCTAACCCTCTCCCCAGAGGGGCGAGGGGACCGACCGAGCGCCTTTTTGACTCTGTACACGGTTAACACTTTGCCGGATGCGGCGTGAACGCCTGATC                                                                                                                                                               <  1:322099/149‑1
         GAATAACCAAGGGTGATGTTGCTGAGACGGTTTTCCCCGTCCCCTAACCCGCTCCCCTGAGGGGCGAGGGGACCGACCGATCGCCTTTTTGACTTTGTACACGGTTAACACTTTGCCGGATGCGGCGTGAACGCCTGATCCGGCCTACG                                                                                                                                                      <  2:416952/149‑1
                                              CTCACCCTAACCCTCTCCCCAGAGGGGCGAGGGGACCGACCGAGCGCCTTTTTGACTCTGTACACGGTTAACACTTTGCCGGATGCGGCGTGAACGCCTGATCCGGCCTACGGTTCGGCACAAACCTGTAGGCATGATAAGACGCGTTA                                                                                                                 >  1:9480/1‑149
                                                                          GAGGGGACCGACCGAGCGCCTTTTTGACTCTGTACACGGTTAACACTTTGCCGGATGCGGCGTGAACGCCTGATCCGGCCTACGGTTCGGCACAAACCTGTAGGCATGATAAGACGCGTTAAGCGTCGCATCAGGCATTGTGCGCCAAC                                                                                     <  2:9480/149‑1
                                                                                                                        acggcgGGATGGGGGGGGAACGCCTGATCCGGCCTACGGTTCGGCACAAACCTGTAGGCATGATAAGACGCGTTAAGCGTCGCATCAGGCATTGTGCGCCAACTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGGCACGTTAAA                                       <  2:688246/143‑1
                                                                                                                                       ggaAACGCCTGATCCGGCCTACGGTTCGGCACAAACCTGTAGGCATGATAAGACGCGTTAAGCGTCGCATCAGGCATTGTGCGCCAACTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGGCACGTTAAACAACGTATACGTGTT                        <  2:773864/146‑1
                                                                                                                                            CGCCTGACACGGCCTAGGGTTCGGCACAAACCTGTAGGCATGATAAGACGGGTTAAGCGTCACATCAGGCATTGTGCGCCAACTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGGCACGTTAAACAACGTATACGTGTTATTAA                   <  2:684831/149‑1
                                                                                                                                                   TCCGGCCTACGGTTCGGCACAAACCTGTAGGCATGATAAGACGCGTTAAGCGTCGCATCAGGCATTGTGCGCCAACTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGGCACGTTAAACAACGTATACGTGTTATTAAGCAACGC            >  1:291568/1‑149
                                                                                                                                                      gtcttatGGTTCGGCACAAACCTGTAGGCATGATAAGACGCGTTAAGCGTCGCATCAGGCATTGTGCGCCAACTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGGCACGTTAAACAACGTATACGTGTTATTAAGCAACGCTTG         <  1:767101/142‑1
                                                                                                                                                             GGTTCGGCACAAACCTGTAGGCATGATAAGAAGCGTTAAGCGTCGCATCAGGCATTGTGCGCCAACTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGGCACGTTAAACAACGTATACGTGTTATTAAGCAACGTTTGCGCAATC  <  1:978681/149‑1
                                                                                                                                                                                                                                                                                                                  
TTTTGCGAAGAATAAACACGGTTGATATTGCTGACACGGTTTTCCCCTCACCCTAACCCTCTCCCCAGAGGGGCGAGGGGACCGACCGAGCGCCTTTTTGACTCTGTACACGGTTAACACTTTGCCGGATGCGGCGTGAACGCCTGATCCGGCCTACGGT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913_3_pae_pgi/3908573‑3908414
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑atccggcctacggtTCGGCACAAACCTGTAGGCATGATAAGACGCGTTAAGCGTCGCATCAGGCATTGTGCGCCAACTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGGCACGTTAAACAACGTATACGTGTTATTAAGCAACGCTTGCGCAATC  <  NC_000913_3_pae_pgi/4613614‑4613469

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ 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.