miRNA display CGI


Results 1 - 20 of 24 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
18241 5' -49.9 NC_004680.1 + 33498 0.66 0.956978
Target:  5'- uGUCGaCCAAGGCGGccacauuCCugGUCGcCAc -3'
miRNA:   3'- uCAGC-GGUUUUGUCu------GGugCAGUaGU- -5'
18241 5' -49.9 NC_004680.1 + 2046 0.66 0.952642
Target:  5'- cGGcCGCCAcacauuGGCAGccagcACCGCGUCAcCAg -3'
miRNA:   3'- -UCaGCGGUu-----UUGUC-----UGGUGCAGUaGU- -5'
18241 5' -49.9 NC_004680.1 + 23125 0.66 0.952642
Target:  5'- cAGUCGCCAAGA---GCgGCGauagCAUCAg -3'
miRNA:   3'- -UCAGCGGUUUUgucUGgUGCa---GUAGU- -5'
18241 5' -49.9 NC_004680.1 + 9598 0.66 0.948021
Target:  5'- cGcCGCCAccGCAGcAgCACGcUCAUCAg -3'
miRNA:   3'- uCaGCGGUuuUGUC-UgGUGC-AGUAGU- -5'
18241 5' -49.9 NC_004680.1 + 37583 0.66 0.943111
Target:  5'- ---gGCCAcguucAAAgAGGCCGCGUCAUa- -3'
miRNA:   3'- ucagCGGU-----UUUgUCUGGUGCAGUAgu -5'
18241 5' -49.9 NC_004680.1 + 33286 0.66 0.940024
Target:  5'- aGGaCGCCGGGGCGGACUuuacguuuggcguggAUGUUGUCGa -3'
miRNA:   3'- -UCaGCGGUUUUGUCUGG---------------UGCAGUAGU- -5'
18241 5' -49.9 NC_004680.1 + 11104 0.66 0.937908
Target:  5'- cGG-CGCCcAAGCAGaacGCCGCGgccguUCGUCAu -3'
miRNA:   3'- -UCaGCGGuUUUGUC---UGGUGC-----AGUAGU- -5'
18241 5' -49.9 NC_004680.1 + 29216 0.66 0.937908
Target:  5'- uAGUCGCCGAAGCcGuuccgggguuGCCGCGgCGUUc -3'
miRNA:   3'- -UCAGCGGUUUUGuC----------UGGUGCaGUAGu -5'
18241 5' -49.9 NC_004680.1 + 153 0.67 0.926616
Target:  5'- aAGUCuUCGAcuCGGGCUACGUUGUCGg -3'
miRNA:   3'- -UCAGcGGUUuuGUCUGGUGCAGUAGU- -5'
18241 5' -49.9 NC_004680.1 + 12348 0.67 0.920525
Target:  5'- cAG-CGCCuuGGGCGGGCCAguUCGUCAc -3'
miRNA:   3'- -UCaGCGGu-UUUGUCUGGUgcAGUAGU- -5'
18241 5' -49.9 NC_004680.1 + 56879 0.67 0.914138
Target:  5'- -aUCGCCGAcACAuGCCG-GUCAUCGg -3'
miRNA:   3'- ucAGCGGUUuUGUcUGGUgCAGUAGU- -5'
18241 5' -49.9 NC_004680.1 + 55426 0.67 0.907456
Target:  5'- uGGUCGCgGAAGCAcucGCCGCGgcgAUCAc -3'
miRNA:   3'- -UCAGCGgUUUUGUc--UGGUGCag-UAGU- -5'
18241 5' -49.9 NC_004680.1 + 35128 0.67 0.907456
Target:  5'- cGUCGCCAGGAgcgucCGGG-CACGUCAa-- -3'
miRNA:   3'- uCAGCGGUUUU-----GUCUgGUGCAGUagu -5'
18241 5' -49.9 NC_004680.1 + 19999 0.68 0.893219
Target:  5'- --aCGUCAGuagcucCAGACCACGUgAUCGu -3'
miRNA:   3'- ucaGCGGUUuu----GUCUGGUGCAgUAGU- -5'
18241 5' -49.9 NC_004680.1 + 22148 0.68 0.877848
Target:  5'- --aCGCCGc--CGGACCACG-CAUCGc -3'
miRNA:   3'- ucaGCGGUuuuGUCUGGUGCaGUAGU- -5'
18241 5' -49.9 NC_004680.1 + 59361 0.69 0.85277
Target:  5'- gGGcCGCCAGcuaacuuuCGGGCCGCGUUcgAUCAg -3'
miRNA:   3'- -UCaGCGGUUuu------GUCUGGUGCAG--UAGU- -5'
18241 5' -49.9 NC_004680.1 + 58488 0.69 0.85277
Target:  5'- cGUCGaCCAcgcAGACAcACCACcaGUCAUCAc -3'
miRNA:   3'- uCAGC-GGU---UUUGUcUGGUG--CAGUAGU- -5'
18241 5' -49.9 NC_004680.1 + 33347 0.69 0.85277
Target:  5'- --cCGCCGAGcUGGuCCAUGUCAUCGu -3'
miRNA:   3'- ucaGCGGUUUuGUCuGGUGCAGUAGU- -5'
18241 5' -49.9 NC_004680.1 + 41185 0.69 0.834797
Target:  5'- uGUUGUCGAAugGGGcuuggccggauuCCugGUCAUCAc -3'
miRNA:   3'- uCAGCGGUUUugUCU------------GGugCAGUAGU- -5'
18241 5' -49.9 NC_004680.1 + 16221 0.7 0.796194
Target:  5'- -aUCGCCGGAugguACGGGCCAacaUCAUCAc -3'
miRNA:   3'- ucAGCGGUUU----UGUCUGGUgc-AGUAGU- -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.