miRNA display CGI


Results 1 - 20 of 64 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
20439 5' -55.8 NC_004688.1 + 8002 0.65 0.87257
Target:  5'- uGCCAGCCgACaucaccgcggggagGCGUCGAUUGUggugGCUu -3'
miRNA:   3'- uCGGUUGGgUG--------------CGCGGCUAGUAa---CGG- -5'
20439 5' -55.8 NC_004688.1 + 97906 0.66 0.867281
Target:  5'- cGCCGcCCCGCGCggGCCucUCGgcgGCUa -3'
miRNA:   3'- uCGGUuGGGUGCG--CGGcuAGUaa-CGG- -5'
20439 5' -55.8 NC_004688.1 + 32163 0.66 0.867281
Target:  5'- cGCCAACauucugccccgaCCGCaGCGCCu-UCAacgUGCCa -3'
miRNA:   3'- uCGGUUG------------GGUG-CGCGGcuAGUa--ACGG- -5'
20439 5' -55.8 NC_004688.1 + 63438 0.66 0.867281
Target:  5'- aGGUCGAUCCG-GCGCUGcAUUAUcucgGCCg -3'
miRNA:   3'- -UCGGUUGGGUgCGCGGC-UAGUAa---CGG- -5'
20439 5' -55.8 NC_004688.1 + 10430 0.66 0.859538
Target:  5'- cGCCGACCUugGCaaucuuGCgGAUUuccUUGUCg -3'
miRNA:   3'- uCGGUUGGGugCG------CGgCUAGu--AACGG- -5'
20439 5' -55.8 NC_004688.1 + 61967 0.66 0.858752
Target:  5'- cGCCAAucgaagauCCCGacguugcCGCGCgGGUCGUccauggccuUGCCg -3'
miRNA:   3'- uCGGUU--------GGGU-------GCGCGgCUAGUA---------ACGG- -5'
20439 5' -55.8 NC_004688.1 + 4782 0.66 0.85158
Target:  5'- cGGCCAACuCCAgG-GCCuccagGAUCGaucccUUGCCg -3'
miRNA:   3'- -UCGGUUG-GGUgCgCGG-----CUAGU-----AACGG- -5'
20439 5' -55.8 NC_004688.1 + 73462 0.66 0.85158
Target:  5'- cAGCUcGCgCCACaggGCGUCGAUC-UUGCg -3'
miRNA:   3'- -UCGGuUG-GGUG---CGCGGCUAGuAACGg -5'
20439 5' -55.8 NC_004688.1 + 3004 0.66 0.85158
Target:  5'- uGGCCucauCCCACGUGaggaaUGcgCAgUUGCCg -3'
miRNA:   3'- -UCGGuu--GGGUGCGCg----GCuaGU-AACGG- -5'
20439 5' -55.8 NC_004688.1 + 52589 0.66 0.843413
Target:  5'- uGGCCGaggcgcgcAUUCACGCuGCUGAUCugcucgcUGCCg -3'
miRNA:   3'- -UCGGU--------UGGGUGCG-CGGCUAGua-----ACGG- -5'
20439 5' -55.8 NC_004688.1 + 79869 0.66 0.843413
Target:  5'- cGCCGcaacugagcgacACCCACggGCGCCcGUCg--GCCg -3'
miRNA:   3'- uCGGU------------UGGGUG--CGCGGcUAGuaaCGG- -5'
20439 5' -55.8 NC_004688.1 + 29342 0.66 0.843413
Target:  5'- cGCCAcCCCGCGCGgCGGgaAUUGgaCCu -3'
miRNA:   3'- uCGGUuGGGUGCGCgGCUagUAAC--GG- -5'
20439 5' -55.8 NC_004688.1 + 109438 0.66 0.843413
Target:  5'- aGGUCGGCUCGCccguggGCGUCGAUC---GCCg -3'
miRNA:   3'- -UCGGUUGGGUG------CGCGGCUAGuaaCGG- -5'
20439 5' -55.8 NC_004688.1 + 3928 0.66 0.843413
Target:  5'- cGCCAACCUcgGUGgCGAgccCAUUGUCa -3'
miRNA:   3'- uCGGUUGGGugCGCgGCUa--GUAACGG- -5'
20439 5' -55.8 NC_004688.1 + 67670 0.66 0.843413
Target:  5'- cGCCAGCCUucgaGUGCCuuGUCGagUGCCc -3'
miRNA:   3'- uCGGUUGGGug--CGCGGc-UAGUa-ACGG- -5'
20439 5' -55.8 NC_004688.1 + 61154 0.66 0.842585
Target:  5'- cGCCGGCCCaccaccACGUGCUggacguaacgguuGAUCA--GCCa -3'
miRNA:   3'- uCGGUUGGG------UGCGCGG-------------CUAGUaaCGG- -5'
20439 5' -55.8 NC_004688.1 + 57246 0.66 0.835045
Target:  5'- uGUCGguGCUCGCG-GCCGAauUCAUcGCCa -3'
miRNA:   3'- uCGGU--UGGGUGCgCGGCU--AGUAaCGG- -5'
20439 5' -55.8 NC_004688.1 + 72430 0.66 0.835045
Target:  5'- uGCUAuCCCA-GCGCCGcgCucugGCCu -3'
miRNA:   3'- uCGGUuGGGUgCGCGGCuaGuaa-CGG- -5'
20439 5' -55.8 NC_004688.1 + 85506 0.66 0.832497
Target:  5'- cGCCGcCCCACGCcgaauacucgaucaGCUGGUCGaUGgCg -3'
miRNA:   3'- uCGGUuGGGUGCG--------------CGGCUAGUaACgG- -5'
20439 5' -55.8 NC_004688.1 + 63321 0.67 0.826484
Target:  5'- cGCCccGGCgCCACGCGUCGAgguagaCGUcaacauacucacUGCCg -3'
miRNA:   3'- uCGG--UUG-GGUGCGCGGCUa-----GUA------------ACGG- -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.