miRNA display CGI


Results 1 - 15 of 15 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
16339 3' -59.6 NC_004084.1 + 48513 0.66 0.527
Target:  5'- gGCaUCGGCggguUCGAUCUCGgguucuccCGGGCaGGg- -3'
miRNA:   3'- -CG-AGCCGa---AGCUAGAGC--------GCCCG-CCgc -5'
16339 3' -59.6 NC_004084.1 + 12518 0.66 0.496868
Target:  5'- uGCUCGaGCUggaucUCGAgagCUUGCaGGUGaGCGa -3'
miRNA:   3'- -CGAGC-CGA-----AGCUa--GAGCGcCCGC-CGC- -5'
16339 3' -59.6 NC_004084.1 + 8409 0.66 0.496868
Target:  5'- cGCUCGGCgacaacgUGAUCauggGCGaGGCGGaCGu -3'
miRNA:   3'- -CGAGCCGaa-----GCUAGag--CGC-CCGCC-GC- -5'
16339 3' -59.6 NC_004084.1 + 10721 0.67 0.486995
Target:  5'- cGCUCGGCUcggggUCGGUUUC-CGGuuGGgGa -3'
miRNA:   3'- -CGAGCCGA-----AGCUAGAGcGCCcgCCgC- -5'
16339 3' -59.6 NC_004084.1 + 29507 0.67 0.477216
Target:  5'- aGCUUggGGCUccagccagccUCGAUCgCGCGGcCGGUGa -3'
miRNA:   3'- -CGAG--CCGA----------AGCUAGaGCGCCcGCCGC- -5'
16339 3' -59.6 NC_004084.1 + 28878 0.68 0.42987
Target:  5'- cGUUCcGCagcgaGAUCUcgcCGCGGGUGGCGa -3'
miRNA:   3'- -CGAGcCGaag--CUAGA---GCGCCCGCCGC- -5'
16339 3' -59.6 NC_004084.1 + 33385 0.68 0.420734
Target:  5'- -aUCGGaugCGAUCUCcucuggauCGGGCGGCu -3'
miRNA:   3'- cgAGCCgaaGCUAGAGc-------GCCCGCCGc -5'
16339 3' -59.6 NC_004084.1 + 21469 0.69 0.352082
Target:  5'- --cCGGC-UCGccCUCGaGGGCGGCGa -3'
miRNA:   3'- cgaGCCGaAGCuaGAGCgCCCGCCGC- -5'
16339 3' -59.6 NC_004084.1 + 29198 0.69 0.349667
Target:  5'- uGCUCGGCgUCGAuguuccagagcgcgUCgacguuguUCGCGGGCGaGUa -3'
miRNA:   3'- -CGAGCCGaAGCU--------------AG--------AGCGCCCGC-CGc -5'
16339 3' -59.6 NC_004084.1 + 56911 0.73 0.195836
Target:  5'- uGCaUCGGCUUCGAgCUCGaGGGCGaCGu -3'
miRNA:   3'- -CG-AGCCGAAGCUaGAGCgCCCGCcGC- -5'
16339 3' -59.6 NC_004084.1 + 22243 0.73 0.186
Target:  5'- cGCUucaaCGGUgaaGAUCUCGCGGaauGCGGCGu -3'
miRNA:   3'- -CGA----GCCGaagCUAGAGCGCC---CGCCGC- -5'
16339 3' -59.6 NC_004084.1 + 49970 0.74 0.181247
Target:  5'- gGCUCGGCgacUCG-UCUCGCGGacGCuGGUGa -3'
miRNA:   3'- -CGAGCCGa--AGCuAGAGCGCC--CG-CCGC- -5'
16339 3' -59.6 NC_004084.1 + 28269 0.78 0.092217
Target:  5'- cGUcgCGGCUUCGAcucguggacgggagUCUCGCgaucgGGGCGGCGa -3'
miRNA:   3'- -CGa-GCCGAAGCU--------------AGAGCG-----CCCGCCGC- -5'
16339 3' -59.6 NC_004084.1 + 25462 0.85 0.030489
Target:  5'- --gUGGCUUCGAggUUCGCGGGCGGCGu -3'
miRNA:   3'- cgaGCCGAAGCUa-GAGCGCCCGCCGC- -5'
16339 3' -59.6 NC_004084.1 + 12960 1.01 0.001858
Target:  5'- gGCUCGGCUUCGAUC-CGCGGGCGGCGu -3'
miRNA:   3'- -CGAGCCGAAGCUAGaGCGCCCGCCGC- -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.