miRNA display CGI


Results 1 - 17 of 17 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
1365 3' -54.9 NC_001335.1 + 36022 0.66 0.727826
Target:  5'- aACCGAUCagCGCCuuccGGGUGGCCC---UGCu -3'
miRNA:   3'- -UGGUUAG--GCGG----UCCAUUGGGccuACG- -5'
1365 3' -54.9 NC_001335.1 + 39647 0.66 0.71711
Target:  5'- cCCAGUCgGCUcGGUGcaGCUCGGGgaGCa -3'
miRNA:   3'- uGGUUAGgCGGuCCAU--UGGGCCUa-CG- -5'
1365 3' -54.9 NC_001335.1 + 35132 0.66 0.695435
Target:  5'- cCCGgaacAUCgGCCAGGUu-CCCuuggagGGGUGCu -3'
miRNA:   3'- uGGU----UAGgCGGUCCAuuGGG------CCUACG- -5'
1365 3' -54.9 NC_001335.1 + 11240 0.66 0.695435
Target:  5'- cGCCGAUcCCGCUgaacGGUGACCCGa---- -3'
miRNA:   3'- -UGGUUA-GGCGGu---CCAUUGGGCcuacg -5'
1365 3' -54.9 NC_001335.1 + 39893 0.67 0.677912
Target:  5'- gACCAGcUCCGCUucguagacgccguagGGGUGGCCaGGAacuggaucaucUGCg -3'
miRNA:   3'- -UGGUU-AGGCGG---------------UCCAUUGGgCCU-----------ACG- -5'
1365 3' -54.9 NC_001335.1 + 31095 0.67 0.629275
Target:  5'- gUCAaggacAUCCGCCAGGcguACCUGGGcgGUa -3'
miRNA:   3'- uGGU-----UAGGCGGUCCau-UGGGCCUa-CG- -5'
1365 3' -54.9 NC_001335.1 + 11798 0.67 0.629275
Target:  5'- cACCAaggagGUCuCGCU-GGUgGACCCGGAcgGCa -3'
miRNA:   3'- -UGGU-----UAG-GCGGuCCA-UUGGGCCUa-CG- -5'
1365 3' -54.9 NC_001335.1 + 40944 0.67 0.629275
Target:  5'- cACCGAguaUCgGaCGGGUucGGCCCGGAcaUGCu -3'
miRNA:   3'- -UGGUU---AGgCgGUCCA--UUGGGCCU--ACG- -5'
1365 3' -54.9 NC_001335.1 + 17221 0.68 0.618197
Target:  5'- gGCCGAgggccgUCGCCAGc--GCCgGGAUGUg -3'
miRNA:   3'- -UGGUUa-----GGCGGUCcauUGGgCCUACG- -5'
1365 3' -54.9 NC_001335.1 + 32347 0.68 0.596087
Target:  5'- aACUGAUCgCGCCAccgagaucGAUCCGGGUGCg -3'
miRNA:   3'- -UGGUUAG-GCGGUcca-----UUGGGCCUACG- -5'
1365 3' -54.9 NC_001335.1 + 7024 0.69 0.541502
Target:  5'- cACUucgaCGCCGacGGUAACCCGGucgGCa -3'
miRNA:   3'- -UGGuuagGCGGU--CCAUUGGGCCua-CG- -5'
1365 3' -54.9 NC_001335.1 + 50028 0.69 0.535053
Target:  5'- cACCuauguggCCGCUugGGGUcgagucauccgcgacAACCCGGAUGUc -3'
miRNA:   3'- -UGGuua----GGCGG--UCCA---------------UUGGGCCUACG- -5'
1365 3' -54.9 NC_001335.1 + 13018 0.69 0.509544
Target:  5'- aGCUGAUCCuCC-GGUGugCCGG-UGCg -3'
miRNA:   3'- -UGGUUAGGcGGuCCAUugGGCCuACG- -5'
1365 3' -54.9 NC_001335.1 + 2410 0.7 0.466211
Target:  5'- uGCCAAcuggcUuuGCCAGaucaacgguCCCGGAUGCg -3'
miRNA:   3'- -UGGUU-----AggCGGUCcauu-----GGGCCUACG- -5'
1365 3' -54.9 NC_001335.1 + 19973 0.7 0.458172
Target:  5'- cGCCAAUuuGCUGGGUugaAGCUCGGAc-- -3'
miRNA:   3'- -UGGUUAggCGGUCCA---UUGGGCCUacg -5'
1365 3' -54.9 NC_001335.1 + 36824 0.71 0.427746
Target:  5'- aGCCGcUgCGCCAGGUcuacgacGGCCCGGuugGUg -3'
miRNA:   3'- -UGGUuAgGCGGUCCA-------UUGGGCCua-CG- -5'
1365 3' -54.9 NC_001335.1 + 21306 1.12 0.0006
Target:  5'- gACCAAUCCGCCAGGUAACCCGGAUGCg -3'
miRNA:   3'- -UGGUUAGGCGGUCCAUUGGGCCUACG- -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.