PROGNOS Summary for Huang_tnikb_Ranking-Homology_5TC
The danRer7 genome was searched for the TALEN pair targeting:
5'- TGTTATTTTCTCCCCT NN..NN ATTTTTGAGCTGGTGGA -3'
Up to 4 mismatches were allowed in each nuclease half-site.
Allowed spacing distances were: 13 14 15 16 17 18 19
Homodimers and heterodimers of the nucleases were included in the output
66 total sites were located | |
Mismatch Types | Genomic Regions |
0 and 0: 1 2 and 3: 1 3 and 4: 9 4 and 4: 55 | Exons: 3 Promoters: 2 Introns: 20 Intergenic: 41 |
Well | Name | Sequence | 5' mods | Internal | Notes |
Primer Plate #1 | |||||
A1 | 024-027401962F | GCTGAGGGGAACACCAAACATG | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
A2 | 024-027401962R | CCAGTATTGCAGCCCTTGTAATACACTGTT | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
B1 | 016-044051024F | GTGCTTAATGCACAGCGGCATC | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
B2 | 016-044051024R | CAACCCTCACCCTAGTCTACC | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
C1 | 008-026575347F | GTCTTAAGGCCTTTCGATTGCAATGCAAAC | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
C2 | 008-026575347R | GTGTGGGTGTTACCCAGCACT | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
D1 | 006-028310006F | GTGTCGGTGTGAACTTCCAGTAG | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
D2 | 006-028310006R | CGAAAACAAGCTCAAGGCCACC | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
E1 | 023-004000336F | GCGCAAGATTCTGACAAGCTTTCG | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
E2 | 023-004000336R | GCATGCGCTTGACGCAGAAGT | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
F1 | 003-041144063F | CTGTGAATTGTGTGGAACCCTGC | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
F2 | 003-041144063R | GGCAAAAGGCCAATAAAGTGTCCG | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
G1 | 013-042252335F | CGTTGCCTGGTTTGATGATTCTCG | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
G2 | 013-042252335R | GGGAGAAGTCGTGATTATGGGG | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
H1 | 017-004427364F | GGAGTCCGCAGAGTTTAACTGG | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
H2 | 017-004427364R | GAAGTTTCCTGCTCGAGGAGCT | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
A3 | 014-004719194F | AGCATGTTGAAATCAATAAATAGCCTACTACTGTCC | Huang_tnikb_Ranking-Homology_5TC Warning! Primer pair was generated using suboptimal parameters. | ||
A4 | 014-004719194R | GCTGAGGCGCTGGACAAAAAC | Huang_tnikb_Ranking-Homology_5TC Warning! Primer pair was generated using suboptimal parameters. | ||
B3 | 016-047429150F | CACTCCTCAACTATAGGGGTGG | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
B4 | 016-047429150R | CACTGATGCCTGTCGACGACT | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
C3 | 007-047515148F | GCACAGATCGTCTTATCCTCTCTC | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
C4 | 007-047515148R | GGTCACTACTGCACAGGTACATG | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
D3 | 001-010011820F | CCATGGGAGCTCACTGTCCT | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
D4 | 001-010011820R | GCAGGACAACTTCCAGTGGC | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
E3 | 007-031277548F | GGAGTGCACAGTGTTCTCACTTG | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
E4 | 007-031277548R | CACGCACGCACACAACACAAC | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
F3 | 020-001352095F | GTGAGCCGGATGCAAGTGTC | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
F4 | 020-001352095R | TGTCCAGTTTAAACCAGGCTGGTC | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
G3 | 019-006276406F | GATGGGACAGTATGGACGCG | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
G4 | 019-006276406R | GACGTCCACAGCAGGGAATTTG | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
H3 | No PrimersF | No Primers | Huang_tnikb_Ranking-Homology_5TC No Primers | ||
H4 | No PrimersR | No Primers | Huang_tnikb_Ranking-Homology_5TC No Primers | ||
A5 | 006-012302933F | TCTGTATATACGGCATGTATAGCACTGGAG | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
A6 | 006-012302933R | TCCCCCCAAAAAGTAACTAGTCGC | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
B5 | 010-013532358F | CAAAGGGCTCACGGTTTGTCTTGT | Huang_tnikb_Ranking-Homology_5TC Warning! Primer pair was generated using suboptimal parameters. | ||
B6 | 010-013532358R | GGTTTTGTTTGCTGTTTCTTAAGTTTGAAGGGG | Huang_tnikb_Ranking-Homology_5TC Warning! Primer pair was generated using suboptimal parameters. | ||
C5 | 017-017427769F | GTTTCGCCTCTCCTTTGAGGAC | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
C6 | 017-017427769R | GCAGGTTGAGAGTGGGTGGT | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
D5 | 009-000021675F | TTATCGGGGGTCGCCACAGT | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
D6 | 009-000021675R | GCCTTGGTGCAAATATTACAGCCG | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
E5 | 004-021822817F | CCTTGCTCTGTTGCTCTAAACATCATTTAGGA | Huang_tnikb_Ranking-Homology_5TC Warning! Primer pair was generated using suboptimal parameters. | ||
E6 | 004-021822817R | CTTGACAGAAAAGCTGTGGCCTAG | Huang_tnikb_Ranking-Homology_5TC Warning! Primer pair was generated using suboptimal parameters. | ||
F5 | 007-024009350F | GGATTCTTGCTCCAAAGATCCCAG | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
F6 | 007-024009350R | GCGATTACCACAGTGGAATGAACC | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
G5 | 018-025634847F | GAGACTAAAAGAGAAGAGCTGGTAAAACAGG | Huang_tnikb_Ranking-Homology_5TC Warning! Primer pair was generated using suboptimal parameters. | ||
G6 | 018-025634847R | CTCCCCAGCTTCGCATATGTTTC | Huang_tnikb_Ranking-Homology_5TC Warning! Primer pair was generated using suboptimal parameters. | ||
H5 | 023-029796044F | ACGACGGCAAGTAAGTGGTCC | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
H6 | 023-029796044R | CTCAGTCCTGAAGAGGTAAGGC | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
A7 | 015-029982775F | GGCAGAGCCAAATTACAGTCCATC | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
A8 | 015-029982775R | TTACGTGGCTGCCGTTTCTGC | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
B7 | No PrimersF | No Primers | Huang_tnikb_Ranking-Homology_5TC No Primers | ||
B8 | No PrimersR | No Primers | Huang_tnikb_Ranking-Homology_5TC No Primers | ||
C7 | 004-034644828F | CTTTCCACACTGAGGGCAGG | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
C8 | 004-034644828R | CTGAAAACTGGGCTGACACGG | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
D7 | 021-036802701F | GACCGCATTTTTCTCCTCCTCAC | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
D8 | 021-036802701R | CCGGGTTTGTGCGTTTTAAGTCC | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
E7 | 015-004995201F | CTCAACATTTTATCAGGTAATGCAATACCAGTGAC | Huang_tnikb_Ranking-Homology_5TC Warning! Primer pair was generated using suboptimal parameters. | ||
E8 | 015-004995201R | TGCCACGAAAGATTAAGGCCATTCTGC | Huang_tnikb_Ranking-Homology_5TC Warning! Primer pair was generated using suboptimal parameters. | ||
F7 | No PrimersF | No Primers | Huang_tnikb_Ranking-Homology_5TC No Primers | ||
F8 | No PrimersR | No Primers | Huang_tnikb_Ranking-Homology_5TC No Primers | ||
G7 | 005-008593040F | GTGGACGCGGATCGTTTTCATTC | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
G8 | 005-008593040R | GCTTTAATCTTGTTCTGGGCCTCC | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
H7 | 002-008682501F | CTACGGGCACTTTTATGTCCTTTGATTTCC | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
H8 | 002-008682501R | GGAAATGACACTGATACTGTGTGACAGC | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
A9 | 022-010953992F | GTATTTTGGTCTTAGTAGTGCTTTGAAATGCGC | Huang_tnikb_Ranking-Homology_5TC Warning! Primer pair was generated using suboptimal parameters. | ||
A10 | 022-010953992R | GCCATGCCCCCTTAAAGATGC | Huang_tnikb_Ranking-Homology_5TC Warning! Primer pair was generated using suboptimal parameters. | ||
B9 | 296-000012696F | CTCTGAAAACTGGACTGACACGG | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
B10 | 296-000012696R | ACTCTTTCCACACTGAGGGCAGG | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
C9 | 017-014089806F | CTCTGTTATTTTCCCTCTCTGCCC | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
C10 | 017-014089806R | CCCACCTGCCCCTGAAATCT | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
D9 | 015-014303624F | CGCATGACCGCGTATCGATACA | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
D10 | 015-014303624R | CTGCTCCCCTGAAACAGTCAAC | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
E9 | 009-014999443F | CTTCATGGAATGCCGGATGCC | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
E10 | 009-014999443R | GGCCCATGTAGTCTCAGGATAAG | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
F9 | 023-015609480F | GTTTGACGGACAGTGTTTAGGAGG | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
F10 | 023-015609480R | CGAGAGGGGGTATAAGGACAG | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
G9 | 163-000017005F | CGGTGTATAATGCTGGTGTAGCTC | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
G10 | 163-000017005R | GCACCCTTTCTGTTGACTAAAGCC | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
H9 | 017-017908369F | TCTTGCTGCCGGAGCAGAG | Huang_tnikb_Ranking-Homology_5TC Warning! Primer pair was generated using suboptimal parameters. | ||
H10 | 017-017908369R | GATTCAGTTCAGTCATTTTTAAACCTGGCCC | Huang_tnikb_Ranking-Homology_5TC Warning! Primer pair was generated using suboptimal parameters. | ||
A11 | 003-018061176F | GGTCCTCTCCTAACATTCCTTCTG | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
A12 | 003-018061176R | GCTGCTGCTGACACATTCAGG | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
B11 | 005-018181209F | GGCCACCCTGATCACGATTAAC | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
B12 | 005-018181209R | CAACTTCACACAAGCACATTCCGC | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
C11 | 001-019043719F | CGCAAGAAGGGGCGAATTTAACC | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
C12 | 001-019043719R | CCGCCATTTGGGCCAAATTTTCC | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
D11 | 015-019562303F | CCTAGAGCTGGTGTCTTGCTTTC | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
D12 | 015-019562303R | GGTCCATGCAGGTTCCAATAGG | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
E11 | 024-019588664F | GCTCAGACGTTCCACAATCCAACA | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
E12 | 024-019588664R | GTGTTGGGACAACATGAAGCAATTATGTGG | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
F11 | 018-023875023F | CATTCTAGCCGGAAAAAAAAAAAAATTTTCTCCAGAGG | Huang_tnikb_Ranking-Homology_5TC Warning! Primer pair was generated using suboptimal parameters. | ||
F12 | 018-023875023R | CCTTAAGATGTATAGAAGTGTCGTGAAAATATCTAGTG | Huang_tnikb_Ranking-Homology_5TC Warning! Primer pair was generated using suboptimal parameters. | ||
G11 | 025-002697030F | TGTGGCTCAGAGACACACACACAT | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
G12 | 025-002697030R | GCGACCCCTGATTAATAAAGGGAC | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
H11 | 025-030215268F | GCATTGTGGCAACAAGCTTTCGAC | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
H12 | 025-030215268R | CTTATGTGTATCTGTGGCCAAAGCTCAATG | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
Primer Plate #2 | |||||
A1 | No PrimersF | No Primers | Huang_tnikb_Ranking-Homology_5TC No Primers | ||
A2 | No PrimersR | No Primers | Huang_tnikb_Ranking-Homology_5TC No Primers | ||
B1 | 012-030852351F | TTGGACTGTGGGGGAAACCCAT | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
B2 | 012-030852351R | GTCTTCAGTGTCACATGATCCCTC | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
C1 | 014-032838949F | GTGCGTCTTTACGGACTTGAATATATTTACCAG | Huang_tnikb_Ranking-Homology_5TC Warning! Primer pair was generated using suboptimal parameters. | ||
C2 | 014-032838949R | CACATTTTCTGGGTGTACTTCACATTTGGTTC | Huang_tnikb_Ranking-Homology_5TC Warning! Primer pair was generated using suboptimal parameters. | ||
D1 | 005-037597563F | CTTGCCTGTCTTGCCTTGTTAACC | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
D2 | 005-037597563R | CACAGAAACGCCAACCGACC | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
E1 | 020-037794081F | GACGTATGGGAGATCTGCCCT | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
E2 | 020-037794081R | GCTTGGTCATTTGTTTTGGGTGAACTATCC | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
F1 | 007-038203459F | GGATGCAGATGCTCAGTATCTCAG | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
F2 | 007-038203459R | CTGTTCTTGTGAGCAAATGCGGC | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
G1 | 001-039182385F | GCCTTTAAATGTCACTTTAAGCTGTATAGAAGTGTC | Huang_tnikb_Ranking-Homology_5TC Warning! Primer pair was generated using suboptimal parameters. Warning! The sequence of this region of the genome is poorly mapped. | ||
G2 | 001-039182385R | GGTGGGGGGTTATAGTTTTGTAGC | Huang_tnikb_Ranking-Homology_5TC Warning! Primer pair was generated using suboptimal parameters. Warning! The sequence of this region of the genome is poorly mapped. | ||
H1 | 014-041273544F | CCTGCCTAGTTACCCCAATTTGC | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
H2 | 014-041273544R | GTGTTTCCATTACAGATTGTACAGCGGTTC | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
A3 | No PrimersF | No Primers | Huang_tnikb_Ranking-Homology_5TC No Primers | ||
A4 | No PrimersR | No Primers | Huang_tnikb_Ranking-Homology_5TC No Primers | ||
B3 | 022-004365783F | GGTGTTTGTGATGGTCAGAGATCC | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
B4 | 022-004365783R | GAAGTAACTTGCACAACACTGCATTCAACG | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
C3 | 003-045064753F | CGTTCATTGTTAGTTCATGTTAACTCATGGTGC | Huang_tnikb_Ranking-Homology_5TC Warning! Primer pair was generated using suboptimal parameters. | ||
C4 | 003-045064753R | CACGGGAGGTCTGTCAAGC | Huang_tnikb_Ranking-Homology_5TC Warning! Primer pair was generated using suboptimal parameters. | ||
D3 | 002-046852941F | GTGACCCCTGATGAATAAAGGGAC | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
D4 | 002-046852941R | CAAAGGCTACCAAGGGTAACGC | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
E3 | 002-056190023F | GGTCAAATCCAACTGTTGGCTCATAAAGTG | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
E4 | 002-056190023R | CCGGGTGACCAGGGACTATA | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
F3 | 004-057253541F | GCTTGCCAAACTCTTTCCACACTG | Huang_tnikb_Ranking-Homology_5TC Warning! Primer pair was generated using suboptimal parameters. | ||
F4 | 004-057253541R | CTATACCTTCTATGTTAAGCGGCTTTGACAC | Huang_tnikb_Ranking-Homology_5TC Warning! Primer pair was generated using suboptimal parameters. | ||
G3 | 017-007362226F | CAGGATCATTGGAATGGTCTAAAACTCAGTG | Huang_tnikb_Ranking-Homology_5TC Warning! Primer pair was generated using suboptimal parameters. | ||
G4 | 017-007362226R | CCCTTTTCGCAGTGCTGTACAAC | Huang_tnikb_Ranking-Homology_5TC Warning! Primer pair was generated using suboptimal parameters. | ||
H3 | 011-007452947F | GGTGCATAGGATGGGAATCATCTG | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
H4 | 011-007452947R | GAGTGGGTGTTGAGAGTGTTGATC | Huang_tnikb_Ranking-Homology_5TC Primer pair generated using optimal parameters. | ||
A5 | 005-009640443F | CGCAATTCGGACTTTATAACTTGCAATTCTGAC | Huang_tnikb_Ranking-Homology_5TC Warning! Primer pair was generated using suboptimal parameters. | ||
A6 | 005-009640443R | GTGTTGGGACAAGATGAAAGAATAGTTTGGC | Huang_tnikb_Ranking-Homology_5TC Warning! Primer pair was generated using suboptimal parameters. | ||
B5 | 005-009701307F | CGCAATTCGGACTTTATAACTTGCAATTCTGAC | Huang_tnikb_Ranking-Homology_5TC Warning! Primer pair was generated using suboptimal parameters. | ||
B6 | 005-009701307R | GTTGGGACAAGATGAAGGAATAGTTTGGC | Huang_tnikb_Ranking-Homology_5TC Warning! Primer pair was generated using suboptimal parameters. |