| New junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | USA300TCH1516_ALE | = 2143383 | 129 (0.630) | 22 (0.130) | 11/132 | NT | 17.0% | intergenic (+18/+7) | USA300HOU_RS10935/USA300HOU_RS10940 | hypothetical protein/hypothetical protein |
| ? | USA300TCH1516_ALE | = 2143399 | 109 (0.650) | coding (1245/1254 nt) | USA300HOU_RS10940 | hypothetical protein | |||||
TCGTTATATTCCAATTACTTAATCCTGAGGCTTTGAAAAAAGCCACGGAACAAGCGAATTTTATATATCACATTTTTATTCCATAATAAAAAAAACGAATCACA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ > USA300TCH1516_ALE/2143280‑2143383‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑aaaaacgaatcacaGCGACGATAATCCGTGTGTGATTCGTTTTTTTTATTATGGAATAAAAATGTGATATATAAAATTCGCTTGTTCCGTGGCTTTTTTCAAAGC < USA300TCH1516_ALE/2143399‑2143309 TCGTTATATTCCAATTACTTAATCCTGAGGCTTTGAAAAAAGCCACGGAACAAGCGAATTTTATATATCACATTTTTATTCCATAATAAAA > 2:35657/1‑91 CGTTATATTCCAATTACTTAATCCTGAGGCTTTGAAAAAAGCCACGGAACAAGCGAATTTTATATATCACATTTTTATTCCATAATAAAAA < 1:251633/91‑1 CGTTATATTCCAATTACTTAATCCTGAGGCTTTGAAAAAAGCCACGGAACAAGCGAATTTTATATATCACATTTTTATTCCATAATAAAAA < 1:2393111/91‑1 CGTTATATTCCAATTACTTAATCCTGAGGATTTGAAAAAAGCCACGGAACAAGCGAATTTTATATATCACATTTTTATTCCATAATAAAAA < 2:2449583/91‑1 CGTTATATCCCAATTACTTAATCCTGAGGCTTTGAAAAAAGCCACGGAACAAGCGAATTTTATATATCACATTTTTATTCCATAATAAAAA < 1:3171785/91‑1 GTTATATTCCAATTACTTAATCCTGAGGCTTTGAAAAAAGCCACGGAACAAGCGAATTTTATATATCACATTTTTATTCCATAATAAAAAA < 1:336433/91‑1 GTTATATTCCAATTACTTAATCCTGAGGCTTTGAAAAAAGCCACGGAACAAGCGAATTTTATATATCACATTTTTATTCCATAATAAAAAA < 2:2266867/91‑1 GTTATATTCCAATTACTTAATCCTGAGGCTTTGAAAAAAGCCACGGAACAAGCGAATTTTATATATCACATTTTTATTCCATAATAAAAAA > 2:2040335/1‑91 GTTATATTCCAATTACTTAATCCTGAGGCTTTGAAAAAAGCCACGGAACAAGCGAATTTTATATATCACATTTTTATTCCATAATAAAAAA > 2:2040440/1‑91 GTTATATTCCAATTACTTAATCCTGAGGCTTTGAAAAAAGCCACGGAACAAGCGAATTTTATATATCACATTTTTATTCCATAATAAAAAA > 2:2041076/1‑91 TATATTCCAATTACTTAATCCTGAGGCTTTGAAAAAAGCCACGGAACAAGCGAATTTTATATATCACATTTTTATTCCATAATAAAAAAAA > 2:785521/1‑91 ATATTCCAATTACTTAATCCTGAGGCTTTGAAAAAAGCCACGGAACAAGCGAATTTTATATATCACATTTTTATTCCATAATAAAAAAAAC > 2:2796696/1‑91 ATATTCCAATTACTTAATCCTGAGGCTTTGAAAAAAGCCACGGAACAAGCGAATTTTATATATCACATTTTTATTCCATAATAAAAAAAAC < 1:3216254/91‑1 TATTCCAATTACTTAATCCTGAGGCTTTGAAAAAAGCCACGGAACAAGCGAATTTTATATATCACATTTTTATTCCATAATAAAAAAAACG < 1:935029/91‑1 TTCCAATTACTTAATCCTGAGGCTTTGAAAAAAGCCACGGAACAAGCGAATTTTATATATCACATTTTTATTCCATAATAAAAAAAACGAA > 2:3860989/1‑91 TTCCAATTACTTAATCCTGAGGCTTTGAAAAAAGCCACGGAACAAGCGAATTTTATATATCACATTTTTATTCCATAATAAAAAAAACGAA > 2:2081566/1‑91 TTCCAATTACTTAATCCTGAGGCTTTGAAAAAAGCCACGGAACAAGCGAATTTTATATATCACATTTTTATTCCATAATAAAAAAAACGAA < 2:1493706/91‑1 TCCAATTACACAATCCTGAGGCTCTGACAAAACCCACGGAACAAGCGAATTTTATATATCACATTTTTATCCCATAATAAAAAAAACGcaa > 2:2001687/1‑88 CCAATTACTTAATCCTGAGGCTTTGAAAAAAGCCACGGAACAAGCGAATTTTATATATCACATTTTTATTCCATAATAAAAAAAACGAATC > 1:2348237/1‑91 CCAATTACTTAATCCTGAGGCTTTGAAAAAAGCCACGGAACAAGCGAATTTTATATATCACATTTTTATTCCATAATAAAAAAAACGAATC < 1:3561373/91‑1 CCAATTACTTAATCCTGAGGCTTTGAAAAAAGCCACGGAACAAGCGAATTTTATATATCACATTTTTATTCCATAATAAAAAAAACGAATC < 2:2991336/91‑1 CAATTACTTAATCCTGAGGCTTTGAAAAAAGCCACGGAACAAGCGAATTTTATATATCACATTTTTATTCCATAATAAAAAAAACGAATCA < 1:1686941/91‑1 AATTACTTAATCCTGAGGCTTTGAAAAAAGCCACGGAACAAGCGAATTTTATATATCACATTTTTATTCCATAATAAAAAAAACGAATCAC < 2:334310/91‑1 ATTACTTAATCCTGAGGCTTTGAAAAAAGCCACGGAACAAGCGAATTTTATATATCACATTTTTATTCCATAATAAAAAAAACGAATCACA < 2:2702220/91‑1 ATTACTTAATCCTGAGGCTTTGAAAAAAGCCACGGAACAAGCGAATTTTATATATCACATTTTTATTCCATAATAAAAAAAACGAATCACA < 1:3113821/91‑1 TACTTAAGCCTGAGGCTTTGAAAAAAGCCACGGAACAAGCGAATTTGATATATCACATTTTTATTCAATAAAAAAAAAAACGAATCACgca < 2:371083/91‑4 GGCTTTGAAAAAAGCCACGGAACAAGCGAATTTTATATATCACATTTTTATTCCATAATAATAAAAACGAATCACAGCGACGATAATCCGT < 1:1230088/91‑1 GCTTTGAAAAAAGCCACGGAACAAGCGAATTTTATATATCACATTTTTATTCCATAATAAAAAAAACGAATCACAGCGACGATAATCCGTG < 2:1219029/91‑1 GCTTTGAAAAAAGCCACGGAACAAGCGAATTTTATATATCACATTTTTATTCCATAATAAAAAAAACGAATCACAGCGACGATAATCCGTG < 2:1219334/91‑1 GCTTTGAAAAAAGCCACGAAACAAGCGAATTTTATATATCACATTTTTATTCCATAATAAAAAAAACGAATCACAGCGACGATAATCCGTG < 2:1219022/91‑1 GCTTTGAAAAAAGCCACGAAACAAGCGAATTTTATATATCACATTTTTATACCAAAATAAAAAAAACGAATCACAGCGACGATAATCCGTG < 2:1221462/91‑1 CTTTGAAAAAAGCCACGGAACAAGCGAATTTTATATATCACATTTTTATTCCATAATAAAAAAAACGAATCACAGCGACGATAATCCGTGT < 2:1722304/91‑1 TTGAAAAAAGCCACGGAACAAGCGAATTTTATATATCACATTTTTATTCCATAATAAAAAAAACGAATCACAGCGACGATAATCCGTGTGT < 1:1283544/91‑1 TTGAAAAAAGCCACGGAACAAGCGAATTTTATATACCACATTTTTATTCCATAATAAAAAAAACGAATCACAGCGACGATAATCCGTGTGT < 1:1721706/91‑1 TGAAAAAAGCCACGGAACAAGCGAATTTTATATGTCACATTTTTATTCCATAATAAAAAAAACGAATCACAGCGACGATAATCCGTGTGTG < 2:2893083/91‑1 TGAAAAAAGCCACGGAACAAGCGAATTTTATATATCACATTTTTATTCCATAATAAAAAAAACGAATCACAGCGACGATAATCCGTGTGTG < 2:2893411/91‑1 GAAAGAAGCCACGGAACAAGCGAATTTTATATATCACATTTTTATGCCATAATAAAAAAAACGAATCACAGCGACGATAATCCGTGTGTGA < 2:1152395/91‑1 GAAAAAAGCCACGGAACAAGCGAATTTTATATATCACATTTTTATTCCATAATAAAAAAAACGAATCACAGCGACGATAATCCGTGTGTGA < 1:793095/91‑1 AAAAAAGCCACGGAACAAGCGAATTTTATATATCACATTTTTATTCCATAATAAAAAAAACGAATCACAGCGACGATAATCCGTGTGTGAT < 1:17021/91‑1 AAAAAAGCCACGGAACAAGCGAATTTTATATATCACATTTTTATTCCATAATAAAAAAAACGAATCACAGCGACGATAATCCGTGTGTGAT < 1:2212905/91‑1 AAAAAAGCCACGGAACAAGCGAATTTTATATATCACATTTTTATTCCATAATAAAAAAAACGAATCACAGCGACGATAATCCGTGTGTGAT < 2:386411/91‑1 AAAAAGCCACGGAACAAGCGAATTTTATATATCACATTTTTATTCCATAATAAAAAAAACGAATCACAGCGACGATAATCCGTGTGTGATT < 1:1765421/91‑1 AAAGCCACGGAACAAGCGAATTTTATATATCACATTTTTATTCCATAATAAAAAAAACGAATCACAGCGACGATAATCCGTGTGTGATTCG < 2:2640345/91‑1 AAAGCCACGGAACAAGCGAATTTTATATAACACATTTTTATTCCATAATAAAAAAAACGAATCACAGCGACAATAATCCGTGTGTGATTCG < 2:1083908/91‑1 AAGCCACGGAACAAGCGAATTTTATATATCAGATTTTTATTCCAGAATAAAAAGAACGAATCACAGCGACGATAATCCGTGTGTGATTCGT < 1:3159557/91‑1 AAGCCACGGAACAAGCGAATTTTATATATCACATTTATATTCCATAATAAAAAAAACGAATCACAGCGACGATAATCCGTGTGTGATTCGT < 2:3905196/91‑1 CCACGGAACAAGCGAATTTTATATATCACATTTTTATTCCATAATAAAAAAAACGAATCACAGCGACGATAATCCGTGTGTGATTCGTTTT < 1:1724005/91‑1 CCACGGAACAAGCGAATTTTATATATCACATTTTTATTCCATAATAAAAAAAACGAATCACAGCGACGATAATCCGTGTGTGATTCGTTTT < 2:2003346/91‑1 AAACACGAAGCACAGCGACGATAATCCGTGTGTGATTCGTTTTTTTTATTATGGAATAAAAATGTGATATATAAAATTCGCTTGTTCCGTG < 1:3557630/91‑1 AAAACGAATCACAGCGACGATAATCCGTGTGTGATTCGTTTTTTTTATTATGGAATAAAAATGTGATATATAAAATTCGCTTGTTCCGTGG < 1:692369/91‑1 AAAACGAATCACAGCGACGATAATCCGTGTGTGATTCGTTTTTTTTATTATGGAATAAAAATGTGATATATAAAATTCGCTTGTTCCGTGG > 2:3801228/1‑91 AAAACGAATCACAGCGACGATAATCCGTGTGTGATTCGTTTTTTTTATTATGGAATAAAAATGTGATATATAAAATTCGCTTGTTCCGTGG > 1:3826027/1‑91 AAACGAATCACAGCGACGATAATCCGTGTGTGATTCGTTTTTTTTATTATGGAATAAAAATGTGATATATAAAATTCGCTTGTTCCGTGGC < 1:503662/91‑1 AAACGAATCACAGCGACGATAATCCGTGTGTGATTCGTTTTTTTTATTATGGAATAAAAATGTGATATATAAAATTCGCTTGTTCCGTGGC < 1:3344975/91‑1 AAACGAATCACAGCGACGATAATCCGTGTGTGATTCGTTTTTTTTATTATGGAATAAAAATGTGATATATAAAATTCGCTTGTTCCGTGGC < 1:2476307/91‑1 AAACGAATCACAGCGACGATAATCCGTGTGTGATTCGTTTTTTTTATTATGGAATAAAAATGTGATATATAAAATTCGCTTGTTCCGTGGC < 2:1025741/91‑1 AAACGAATCACAGCGACGATAATCCGTGTGTGATTCGTTTTTTTTATTATGGAATAAAAATGTGATATATAAAATTCGCTTGTTCCGTGGC < 2:3299916/91‑1 AACGAATCACAGCGACGATAATCCGTGTGTGATTCGTTTTTTTTATTATGGAATAAAAATGTGATATATAAAATTCGCTTGTTCCGTGGCT < 1:367134/91‑1 AACGAATCACAGCGACGATAATCCGTGTGTGATTCGTTTTTTTTATTATGGAATAAAAATGTGATATATAAAATTCGCTTGTTCCGTGGCT < 2:3407913/91‑1 ACGAATCACAGCGACGATAATCCGTGTGTGATTCGTTTTTTTTATTATGGAATAAAAATGTGATATATAAAATTCGCTTGTTCCGTGGCTT < 2:1450414/91‑1 CGAATCACAGCGACGATAATCCGTGTGTGATTCGTTTTTTTTATTATGGAATAAAAATGTGATATATAAAATTCGCTTGTTCCGTGGCTTT < 1:251792/91‑1 CGAATCACAGCGACGATAATCCGTGTGTGATTCGTTTTTTTTATTATGGAATAAAAATGTGATATATAAAATTCGCTTGTTCCGTGGCTTT < 1:3438266/91‑1 GAATCACAGCGACGATAATCCGTGTGTGATTCGTTTTTTTTATTATGGAATAAAAATGTGATATATAAAATTCGCTTGTTCCGTGGCTTTT > 2:839216/1‑91 AATCACAGCGACGATAATCCGTGTGTGATTCGTTTTTTTTATTATGGAATAAAAATGTGATATATAAAATTCGCTTGTTCCGTGGCTTTTT < 1:3201121/91‑1 ATCACGGCGACGATAATCCGTGTGTGATTCGTTTTTTTTATTATGGAATAAAAATGTGATATATAAAATTCGCTTGTTCCGTGGCTTTgaa < 2:1542840/91‑4 ATCACAGCGACGTTAATCCGTGTGTGATTCGTTTTTTTTATTATGGAATAAAAATGTGATATATAAAATTCGCTTGTTCCGTGGCTTTTTT > 1:3036886/1‑91 ATCACAGCGACGATAATCCGTGTGTGATTCGTTTTTTTTATTATGGAATAAAAATGTGATATATAAAATTCGCTTGTTCCGTGGCTTTgaa < 1:2616655/91‑4 ATCACAGCGACGATAATCCGTGTGTGATTCGTTTTTTTTATTATGGAATAAAAATGTGATATATAAAATTCGCTTGTTCCGTGGCTTTgaa < 2:388415/91‑4 ATCACAGCGACGATAATCCGTGTGTGATTCGTTTTTTTTATTATGGAATAAAAATGTGATATATAAAATTCGCTTGTTCCGTGGCTTTgaa < 1:3133773/91‑4 ATCACAGCGACGATAATCCGTGTGTGATTCGTTTTTTTTATTATGGAATAAAAATGTGATATATAAAATTCGCTTGTTCCGTGGCTTTTTT < 1:1457503/91‑1 ATCAAAGCGACGATAATCCGTGTGTGATTCGTTTTTTTTATTATGGAATAAAAATGTGATATATAAAATTCGCTTGTTCCGTGGCTTTTTT > 1:3119014/1‑91 TCACAGCGACGATAATCCGTGTGTGATTCGTTTTTTTTATTATGGAATAAAAATGTGATATATAAAATTCGCTTGTTCCGTGGCTTTTTTC < 1:3277569/91‑1 TCACAGCGACGATAATCCGTGTGTGATTCGTTTTTTTTATTATGGAATAAAAATGTGATATATAAAATTCGCTTGTTCCGTGGCTTTTTTC < 1:3791089/91‑1 TCACAGCGACGATAATCCGTGTGTGATTCGTTTTTTTTATTATGGAATAAAAATGTGATATATAAAATTCGCTTGTTCCGTGGCTTTTTTC < 2:1768758/91‑1 TCACAGCGACGATAATCCGTGTGTGATTCGTTTTTTTTATTATGGAATAAAAATGTGATATATAAAATTCGCTTGTTCCGTGGCTTTTTTC > 1:597766/1‑91 TCACAGCGACGATAATCCGTGTGTGATTCGTTTTTTTTATTATGGAATAAAAATGTGATATATAAAATTCGCTTGTTCCGTGGCTTTTTTC > 2:1296794/1‑91 CACAGCGACGATAATCCGTGTGTGATTCGTTTTTTTTATTATGGAATAAAAATGTGATATATAAAATTCGCTTGTTCCGTGGCTTTTTTCA < 2:74373/91‑1 CACAGCGACGATAATCCGTGTGTGATTCGTTTTTTTTATTATGGAATAAAAATGTGATATATAAAATTCGCTTGTTCCGTGGCTTTTTTCA > 1:3475910/1‑91 CACAGCGACGATAATCCGTGTGTGATTCGTTTTTTTTATTATGGAATAAAAATGTGATATATAAAATTCGCTTGTTCCGTGGCTTTTTTCA < 2:1704321/91‑1 CAGCGACGATAATCCGTGTGTGATTCGTTTTTTTTATTATGGAATAAAAATGTGATATATAAAATTCGCTTGTTCCGTGGCTTTTTTCAAA > 2:945303/1‑91 CAGCGACGATAATCCGTGTGTGATTCGTTTTTTTTATTATGGAATAAAAATGTGATATATAAAATTCGCTTGTTCCGTGGCTTTTTTCAAA < 1:1478750/91‑1 AGCGACGATAATCCGTGTGTGATTCGTTTTTTTTATTATGGAATAAAAATGTGATATATAAAATTCGCTTGTTCCGTGGCTTTTTTCAAAG > 2:1200369/1‑91 AGCGACGATAATCCGTGTGTGATTCG‑TTTTTTTATTATGGAATAAAAATGTGATATATAAAATTCGCTTGTTCCGTGGCTTTTTTCAAAGC < 2:1088684/91‑1 TCGTTATATTCCAATTACTTAATCCTGAGGCTTTGAAAAAAGCCACGGAACAAGCGAATTTTATATATCACATTTTTATTCCATAATAAAAAAAACGAATCACA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ > USA300TCH1516_ALE/2143280‑2143383‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑aaaaacgaatcacaGCGACGATAATCCGTGTGTGATTCGTTTTTTTTATTATGGAATAAAAATGTGATATATAAAATTCGCTTGTTCCGTGGCTTTTTTCAAAGC < USA300TCH1516_ALE/2143399‑2143309 |
| 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. |