miRNA display CGI


Results 1 - 20 of 34 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
17105 3' -50.2 NC_004333.2 + 344 0.68 0.860027
Target:  5'- gCCGUGAcCGUGcucggcGGCGUGAcgaccacaucgaacGGCACGGc -3'
miRNA:   3'- -GGCACUuGCACu-----UUGCGUU--------------CCGUGCC- -5'
17105 3' -50.2 NC_004333.2 + 652 1.13 0.001918
Target:  5'- cCCGUGAACGUGAAACGCAAGGCACGGu -3'
miRNA:   3'- -GGCACUUGCACUUUGCGUUCCGUGCC- -5'
17105 3' -50.2 NC_004333.2 + 2789 0.75 0.513373
Target:  5'- aCCGUGaAGCG-GuuGCGCAGGGCAUc- -3'
miRNA:   3'- -GGCAC-UUGCaCuuUGCGUUCCGUGcc -5'
17105 3' -50.2 NC_004333.2 + 2840 0.7 0.757212
Target:  5'- aCGgu--CGUGAcgAACGCGAccGGCACGGc -3'
miRNA:   3'- gGCacuuGCACU--UUGCGUU--CCGUGCC- -5'
17105 3' -50.2 NC_004333.2 + 5404 0.68 0.862551
Target:  5'- aCGgcGGCGUGAcgauccAGCGCgAAGGCGCGa -3'
miRNA:   3'- gGCacUUGCACU------UUGCG-UUCCGUGCc -5'
17105 3' -50.2 NC_004333.2 + 7481 0.66 0.943237
Target:  5'- gCCGc--GCGUcGAAgGCAAGGaCACGGc -3'
miRNA:   3'- -GGCacuUGCAcUUUgCGUUCC-GUGCC- -5'
17105 3' -50.2 NC_004333.2 + 9827 0.66 0.926931
Target:  5'- cCCGUccGCGUcgccuGAGCGCAugacGGGCACGu -3'
miRNA:   3'- -GGCAcuUGCAc----UUUGCGU----UCCGUGCc -5'
17105 3' -50.2 NC_004333.2 + 12412 0.8 0.287053
Target:  5'- aCCGUcgcGAACGUGAAugcgaacgucaacccGCGCGAGGCugGc -3'
miRNA:   3'- -GGCA---CUUGCACUU---------------UGCGUUCCGugCc -5'
17105 3' -50.2 NC_004333.2 + 13852 0.77 0.42092
Target:  5'- -aGUGGACGUGAGcaacuacacgccGCGCGAGcggcGCGCGGc -3'
miRNA:   3'- ggCACUUGCACUU------------UGCGUUC----CGUGCC- -5'
17105 3' -50.2 NC_004333.2 + 13857 0.66 0.932657
Target:  5'- gCGUcGAGCGcauUGAGcgcgccgcgccGCGCGAagucggccGGCACGGg -3'
miRNA:   3'- gGCA-CUUGC---ACUU-----------UGCGUU--------CCGUGCC- -5'
17105 3' -50.2 NC_004333.2 + 17709 0.69 0.845301
Target:  5'- uUCGcGAACGUGucggccACgGCAccGGGCGCGGc -3'
miRNA:   3'- -GGCaCUUGCACuu----UG-CGU--UCCGUGCC- -5'
17105 3' -50.2 NC_004333.2 + 18588 0.68 0.878789
Target:  5'- uUCGUGcaacaAACGaccGGCGCGgcAGGCGCGGg -3'
miRNA:   3'- -GGCAC-----UUGCacuUUGCGU--UCCGUGCC- -5'
17105 3' -50.2 NC_004333.2 + 19494 0.69 0.808051
Target:  5'- gCGUGAACGU----CGCGGGuaGCGCGGc -3'
miRNA:   3'- gGCACUUGCAcuuuGCGUUC--CGUGCC- -5'
17105 3' -50.2 NC_004333.2 + 21158 0.66 0.932098
Target:  5'- aCGUGAugGUGcgcuuCGCGcugccgcAGGC-CGGc -3'
miRNA:   3'- gGCACUugCACuuu--GCGU-------UCCGuGCC- -5'
17105 3' -50.2 NC_004333.2 + 22531 0.7 0.778037
Target:  5'- uCCaGUaGAACGUGAuguugccgAGCGaCGAGcGCGCGGu -3'
miRNA:   3'- -GG-CA-CUUGCACU--------UUGC-GUUC-CGUGCC- -5'
17105 3' -50.2 NC_004333.2 + 22830 0.68 0.879573
Target:  5'- cUCGUGAACGUGAGcgauACGCccggauuuuguugcGGCcCGGc -3'
miRNA:   3'- -GGCACUUGCACUU----UGCGuu------------CCGuGCC- -5'
17105 3' -50.2 NC_004333.2 + 25077 0.71 0.70301
Target:  5'- uCCGUGGcgaucaGCGUGAcAgGC--GGCGCGGa -3'
miRNA:   3'- -GGCACU------UGCACUuUgCGuuCCGUGCC- -5'
17105 3' -50.2 NC_004333.2 + 26263 0.73 0.601824
Target:  5'- uUCGcUGAACGUGAGGCaGUAuguGGCGCGc -3'
miRNA:   3'- -GGC-ACUUGCACUUUG-CGUu--CCGUGCc -5'
17105 3' -50.2 NC_004333.2 + 26653 0.69 0.808051
Target:  5'- cUCGUGAGCGUGAucGCGCc-GGCugcCGa -3'
miRNA:   3'- -GGCACUUGCACUu-UGCGuuCCGu--GCc -5'
17105 3' -50.2 NC_004333.2 + 28238 0.67 0.901125
Target:  5'- aCgGUGAcCGUGAcGCGCGcgcGGCGCu- -3'
miRNA:   3'- -GgCACUuGCACUuUGCGUu--CCGUGcc -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.