miRNA display CGI


Results 1 - 20 of 96 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
28108 3' -61 NC_005887.1 + 41930 0.67 0.276743
Target:  5'- aGCGGCucgcagcugagcuGCCCGGCGUGCucGCGUgGUg -3'
miRNA:   3'- cCGCCGu------------CGGGCCGUAUGc-UGCGgUA- -5'
28108 3' -61 NC_005887.1 + 41597 0.74 0.095526
Target:  5'- aGCGGCGGCCCaGGU--GCGGCgGCCGg -3'
miRNA:   3'- cCGCCGUCGGG-CCGuaUGCUG-CGGUa -5'
28108 3' -61 NC_005887.1 + 41353 0.76 0.060453
Target:  5'- cGGCGGCAgcagcgcGCCCGugcGCAggucgACGGCGCCAUu -3'
miRNA:   3'- -CCGCCGU-------CGGGC---CGUa----UGCUGCGGUA- -5'
28108 3' -61 NC_005887.1 + 41215 0.66 0.331876
Target:  5'- uGCGGCuuUCUGGCAcGCGGCGCa-- -3'
miRNA:   3'- cCGCCGucGGGCCGUaUGCUGCGgua -5'
28108 3' -61 NC_005887.1 + 40970 0.68 0.252677
Target:  5'- cGCGGUAGCCCuucGGCGgcuCGuCGUCAc -3'
miRNA:   3'- cCGCCGUCGGG---CCGUau-GCuGCGGUa -5'
28108 3' -61 NC_005887.1 + 40826 0.67 0.286584
Target:  5'- cGGCGGC-GCgCGGCGcgccaacgGCGAuCGCCu- -3'
miRNA:   3'- -CCGCCGuCGgGCCGUa-------UGCU-GCGGua -5'
28108 3' -61 NC_005887.1 + 40421 0.67 0.272608
Target:  5'- cGGCGGCAcGgCCGcGCu--CGACgGCCAg -3'
miRNA:   3'- -CCGCCGU-CgGGC-CGuauGCUG-CGGUa -5'
28108 3' -61 NC_005887.1 + 39619 0.69 0.200025
Target:  5'- aGGCgGGCAGCCCgucgcgcggauuGGgGUAcagagcCGGCGCCAg -3'
miRNA:   3'- -CCG-CCGUCGGG------------CCgUAU------GCUGCGGUa -5'
28108 3' -61 NC_005887.1 + 38219 0.67 0.279527
Target:  5'- cGCGcGCAGCCUuGC--GCGugGCCGg -3'
miRNA:   3'- cCGC-CGUCGGGcCGuaUGCugCGGUa -5'
28108 3' -61 NC_005887.1 + 37682 0.67 0.279527
Target:  5'- aGCaGCcGCCCcGCAUgcaaGCGACGCCGg -3'
miRNA:   3'- cCGcCGuCGGGcCGUA----UGCUGCGGUa -5'
28108 3' -61 NC_005887.1 + 36533 0.7 0.174626
Target:  5'- cGGCGGCAGguauuucgcgaauUCCGGCAgGCGuucguGCGCCu- -3'
miRNA:   3'- -CCGCCGUC-------------GGGCCGUaUGC-----UGCGGua -5'
28108 3' -61 NC_005887.1 + 35861 0.7 0.184717
Target:  5'- uGCGGauugcGCUCGGCAgacaccGCGACGCCGc -3'
miRNA:   3'- cCGCCgu---CGGGCCGUa-----UGCUGCGGUa -5'
28108 3' -61 NC_005887.1 + 35722 0.66 0.323975
Target:  5'- cGCGuGCAGCUCGGUcgcgguCGugGCCc- -3'
miRNA:   3'- cCGC-CGUCGGGCCGuau---GCugCGGua -5'
28108 3' -61 NC_005887.1 + 35421 0.68 0.240067
Target:  5'- cGCGuGguGCCgGGCGUGaagcuCGugGCCGg -3'
miRNA:   3'- cCGC-CguCGGgCCGUAU-----GCugCGGUa -5'
28108 3' -61 NC_005887.1 + 34347 0.66 0.323975
Target:  5'- uGGCGcCGGCCaCGGCuggagACGAgCGCCc- -3'
miRNA:   3'- -CCGCcGUCGG-GCCGua---UGCU-GCGGua -5'
28108 3' -61 NC_005887.1 + 33840 0.77 0.055623
Target:  5'- uGGUGGaAGCCCGGCAcGCcGCGCCAg -3'
miRNA:   3'- -CCGCCgUCGGGCCGUaUGcUGCGGUa -5'
28108 3' -61 NC_005887.1 + 33106 0.68 0.233961
Target:  5'- cGgGGUcGCCCGGCuUGCGuuccuCGCCGUu -3'
miRNA:   3'- cCgCCGuCGGGCCGuAUGCu----GCGGUA- -5'
28108 3' -61 NC_005887.1 + 32732 0.67 0.293781
Target:  5'- cGGCggGGUAGCgCGGCGcucgcgUGCG-CGCCGg -3'
miRNA:   3'- -CCG--CCGUCGgGCCGU------AUGCuGCGGUa -5'
28108 3' -61 NC_005887.1 + 32608 0.78 0.049572
Target:  5'- cGCGGUgaaAGCCUGGCAcACGugGCCGg -3'
miRNA:   3'- cCGCCG---UCGGGCCGUaUGCugCGGUa -5'
28108 3' -61 NC_005887.1 + 31886 0.68 0.265828
Target:  5'- gGGCGGCGGCaagaagGGCAUgagguuggauGCGGCGgCAg -3'
miRNA:   3'- -CCGCCGUCGgg----CCGUA----------UGCUGCgGUa -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.