miRNA display CGI


Results 1 - 20 of 21 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
21346 5' -49.8 NC_004778.3 + 6191 0.66 0.996381
Target:  5'- uCGuGGGC-CCGcg-AGUCAAuggCGCg -3'
miRNA:   3'- -GCuCCCGcGGCauaUCAGUUuuaGCG- -5'
21346 5' -49.8 NC_004778.3 + 32283 0.66 0.995324
Target:  5'- cCGGcGGCGCCGUGUcgggcuggugcuuaaAGUCcAGGcCGCu -3'
miRNA:   3'- -GCUcCCGCGGCAUA---------------UCAGuUUUaGCG- -5'
21346 5' -49.8 NC_004778.3 + 33183 0.66 0.995024
Target:  5'- uGAcGGGcCGCCGUAcuuuGUgGAcuUCGCg -3'
miRNA:   3'- gCU-CCC-GCGGCAUau--CAgUUuuAGCG- -5'
21346 5' -49.8 NC_004778.3 + 117996 0.66 0.994206
Target:  5'- -cGGGGCGgUGgaAUAcUCAAAAUCGCu -3'
miRNA:   3'- gcUCCCGCgGCa-UAUcAGUUUUAGCG- -5'
21346 5' -49.8 NC_004778.3 + 95074 0.67 0.99338
Target:  5'- uCGGuGGCGCUGUcGUAGUCAcucacguagccuucAUCGCa -3'
miRNA:   3'- -GCUcCCGCGGCA-UAUCAGUuu------------UAGCG- -5'
21346 5' -49.8 NC_004778.3 + 21085 0.67 0.992245
Target:  5'- --cGGGCgGCCGgcUGGgcugcggCAuuAUCGCa -3'
miRNA:   3'- gcuCCCG-CGGCauAUCa------GUuuUAGCG- -5'
21346 5' -49.8 NC_004778.3 + 57267 0.68 0.986763
Target:  5'- -cGGGGCccagcaccGCCGUAaAGUUGGAGUgCGCg -3'
miRNA:   3'- gcUCCCG--------CGGCAUaUCAGUUUUA-GCG- -5'
21346 5' -49.8 NC_004778.3 + 42500 0.68 0.986763
Target:  5'- uGAGGGCGgCGU--GGUCGGcg-UGCc -3'
miRNA:   3'- gCUCCCGCgGCAuaUCAGUUuuaGCG- -5'
21346 5' -49.8 NC_004778.3 + 71164 0.68 0.985013
Target:  5'- gCGGGGGCGuuGgcgaggaAGUCGGcaaggguGUCGCc -3'
miRNA:   3'- -GCUCCCGCggCaua----UCAGUUu------UAGCG- -5'
21346 5' -49.8 NC_004778.3 + 43727 0.68 0.983882
Target:  5'- aCGGGGGCGCCGcgccgggacacaucaUGU-GUCcaccgCGCg -3'
miRNA:   3'- -GCUCCCGCGGC---------------AUAuCAGuuuuaGCG- -5'
21346 5' -49.8 NC_004778.3 + 6977 0.68 0.982686
Target:  5'- aGGGGGCGCCcGUcGUGGUguuuccgCGCg -3'
miRNA:   3'- gCUCCCGCGG-CA-UAUCAguuuua-GCG- -5'
21346 5' -49.8 NC_004778.3 + 112345 0.69 0.973514
Target:  5'- gCGAGGGCGCCGagaa--CGAAGU-GCa -3'
miRNA:   3'- -GCUCCCGCGGCauaucaGUUUUAgCG- -5'
21346 5' -49.8 NC_004778.3 + 6834 0.69 0.970603
Target:  5'- aCGAcGGGCGCCcccuGUGUGGacgCAGGcggCGCg -3'
miRNA:   3'- -GCU-CCCGCGG----CAUAUCa--GUUUua-GCG- -5'
21346 5' -49.8 NC_004778.3 + 92183 0.69 0.96747
Target:  5'- -cAGGGCGUCGUA---UCAAAA-CGCg -3'
miRNA:   3'- gcUCCCGCGGCAUaucAGUUUUaGCG- -5'
21346 5' -49.8 NC_004778.3 + 5737 0.7 0.952581
Target:  5'- aCGGGuGGCGCuCGUcuuucggAGUCAAGuuGUUGCg -3'
miRNA:   3'- -GCUC-CCGCG-GCAua-----UCAGUUU--UAGCG- -5'
21346 5' -49.8 NC_004778.3 + 36321 0.7 0.952581
Target:  5'- gGAGGGCGUgGUcGUAccgggcGUCAu-GUCGCg -3'
miRNA:   3'- gCUCCCGCGgCA-UAU------CAGUuuUAGCG- -5'
21346 5' -49.8 NC_004778.3 + 45758 0.7 0.952581
Target:  5'- aCGAGGGCGCgGcUAUG--CAGAAggCGCg -3'
miRNA:   3'- -GCUCCCGCGgC-AUAUcaGUUUUa-GCG- -5'
21346 5' -49.8 NC_004778.3 + 101053 0.7 0.948242
Target:  5'- uGAGGGCGUCGUugAGgcc--GUCGCc -3'
miRNA:   3'- gCUCCCGCGGCAuaUCaguuuUAGCG- -5'
21346 5' -49.8 NC_004778.3 + 85414 0.77 0.666999
Target:  5'- aCGcGGGCGCCGUGUAuGUCGucguUUGCc -3'
miRNA:   3'- -GCuCCCGCGGCAUAU-CAGUuuu-AGCG- -5'
21346 5' -49.8 NC_004778.3 + 8091 0.78 0.624179
Target:  5'- aCGAGGGCgGCCGUGagugGGUCAuuGaCGCc -3'
miRNA:   3'- -GCUCCCG-CGGCAUa---UCAGUuuUaGCG- -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.