miRNA display CGI


Results 1 - 20 of 62 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
24962 3' -53.9 NC_005284.1 + 907 0.67 0.712374
Target:  5'- gACGACGGC-CGCcGCAUCccggCCGcuguGCu -3'
miRNA:   3'- -UGCUGCCGuGCG-UGUAGaua-GGCu---CG- -5'
24962 3' -53.9 NC_005284.1 + 1134 0.69 0.602333
Target:  5'- gGCGACGGCGCGuCGcCAUCgugcuccauUGUCgaugaguaccaCGAGCa -3'
miRNA:   3'- -UGCUGCCGUGC-GU-GUAG---------AUAG-----------GCUCG- -5'
24962 3' -53.9 NC_005284.1 + 1239 0.68 0.673099
Target:  5'- gACGACGGCGaa-ACAUCaGaacggccauagcaacUCCGGGCg -3'
miRNA:   3'- -UGCUGCCGUgcgUGUAGaU---------------AGGCUCG- -5'
24962 3' -53.9 NC_005284.1 + 1696 0.69 0.635529
Target:  5'- gGCGGCGGCAUuacuucugcguuGCGCcgCgauUCUGGGUg -3'
miRNA:   3'- -UGCUGCCGUG------------CGUGuaGau-AGGCUCG- -5'
24962 3' -53.9 NC_005284.1 + 4390 0.67 0.754773
Target:  5'- uCGAgUGGCACgGCACAacggUUUcgUCGAGCg -3'
miRNA:   3'- uGCU-GCCGUG-CGUGU----AGAuaGGCUCG- -5'
24962 3' -53.9 NC_005284.1 + 5885 0.68 0.690648
Target:  5'- -aGGCGGCGCaGCgACAccuUCgccgCCGGGCg -3'
miRNA:   3'- ugCUGCCGUG-CG-UGU---AGaua-GGCUCG- -5'
24962 3' -53.9 NC_005284.1 + 5956 0.66 0.804836
Target:  5'- gACGccACGGCugGCGCcg--AUCCGAucgucGCg -3'
miRNA:   3'- -UGC--UGCCGugCGUGuagaUAGGCU-----CG- -5'
24962 3' -53.9 NC_005284.1 + 6676 0.71 0.473022
Target:  5'- gGCGACGGCcgGCGUACGg--GUCCGgacgaagGGCa -3'
miRNA:   3'- -UGCUGCCG--UGCGUGUagaUAGGC-------UCG- -5'
24962 3' -53.9 NC_005284.1 + 6987 0.68 0.679694
Target:  5'- cGCGuacAUGGCGCGCucgACAUggcgCUcgCCGGGCu -3'
miRNA:   3'- -UGC---UGCCGUGCG---UGUA----GAuaGGCUCG- -5'
24962 3' -53.9 NC_005284.1 + 8649 0.7 0.536867
Target:  5'- cGCGACGGCggGCGCACAgcggAUgCG-GCg -3'
miRNA:   3'- -UGCUGCCG--UGCGUGUaga-UAgGCuCG- -5'
24962 3' -53.9 NC_005284.1 + 8724 0.69 0.624453
Target:  5'- gACG-CGGCGCGCAguUCgAUCCGcgaauacgcacaAGCc -3'
miRNA:   3'- -UGCuGCCGUGCGUguAGaUAGGC------------UCG- -5'
24962 3' -53.9 NC_005284.1 + 9256 0.72 0.453915
Target:  5'- -gGGCGGCACGgAUAcgCUGUUCGAGa -3'
miRNA:   3'- ugCUGCCGUGCgUGUa-GAUAGGCUCg -5'
24962 3' -53.9 NC_005284.1 + 9607 0.67 0.743284
Target:  5'- cGCGGCGGCgaagcuucagaACGCGCAagcggcggaggcuUCagcgcaggCCGAGCu -3'
miRNA:   3'- -UGCUGCCG-----------UGCGUGU-------------AGaua-----GGCUCG- -5'
24962 3' -53.9 NC_005284.1 + 9790 0.68 0.668694
Target:  5'- cGCaACGGCGCGCGCcaacGUCg--CCG-GCa -3'
miRNA:   3'- -UGcUGCCGUGCGUG----UAGauaGGCuCG- -5'
24962 3' -53.9 NC_005284.1 + 9823 0.71 0.484268
Target:  5'- -gGAaauCGGCGCGCGCAUCa---CGGGCa -3'
miRNA:   3'- ugCU---GCCGUGCGUGUAGauagGCUCG- -5'
24962 3' -53.9 NC_005284.1 + 9876 0.68 0.690648
Target:  5'- -aGACGGCAgcCGCACAgcaggagCuCGAGCg -3'
miRNA:   3'- ugCUGCCGU--GCGUGUagaua--G-GCUCG- -5'
24962 3' -53.9 NC_005284.1 + 10131 0.69 0.624453
Target:  5'- gGCGACGGCGCagacggcgcucGCGCGUa----CGGGCa -3'
miRNA:   3'- -UGCUGCCGUG-----------CGUGUAgauagGCUCG- -5'
24962 3' -53.9 NC_005284.1 + 10878 0.66 0.765085
Target:  5'- uAUGACGGCcCGC-CAgaaggCCGAGUa -3'
miRNA:   3'- -UGCUGCCGuGCGuGUagauaGGCUCG- -5'
24962 3' -53.9 NC_005284.1 + 11750 0.75 0.311824
Target:  5'- -gGACGGCACGCugGguUCgc-CCGAGUa -3'
miRNA:   3'- ugCUGCCGUGCGugU--AGauaGGCUCG- -5'
24962 3' -53.9 NC_005284.1 + 11810 0.7 0.536867
Target:  5'- gGCGGagcaGGuCGCGCGCGagcgcggCUAUCuCGAGCa -3'
miRNA:   3'- -UGCUg---CC-GUGCGUGUa------GAUAG-GCUCG- -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.