miRNA display CGI


Results 1 - 20 of 53 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
26610 3' -55.5 NC_005357.1 + 41775 0.67 0.569874
Target:  5'- uGGUGGCUaCaGCCUUggGCaCCGAcucGACg -3'
miRNA:   3'- -CCGCUGAaGcCGGAGuuCG-GGUU---CUG- -5'
26610 3' -55.5 NC_005357.1 + 40414 0.69 0.446739
Target:  5'- cGCGACUUCgccagcgagcgccugGGCCUCAagaucAGCCacuGGCa -3'
miRNA:   3'- cCGCUGAAG---------------CCGGAGU-----UCGGguuCUG- -5'
26610 3' -55.5 NC_005357.1 + 37878 1.11 0.000459
Target:  5'- cGGCGACUUCGGCCUCAAGCCCAAGACc -3'
miRNA:   3'- -CCGCUGAAGCCGGAGUUCGGGUUCUG- -5'
26610 3' -55.5 NC_005357.1 + 37122 0.67 0.547818
Target:  5'- cGCGGCcuaCGGCCUCGAccuGCC--AGACa -3'
miRNA:   3'- cCGCUGaa-GCCGGAGUU---CGGguUCUG- -5'
26610 3' -55.5 NC_005357.1 + 36234 0.81 0.072729
Target:  5'- cGGCGGCUaUCGGCUUCGGGuUCCAAGAg -3'
miRNA:   3'- -CCGCUGA-AGCCGGAGUUC-GGGUUCUg -5'
26610 3' -55.5 NC_005357.1 + 36148 0.72 0.286371
Target:  5'- gGGCGACcugUUCGGCCU---GCCCAGcGCg -3'
miRNA:   3'- -CCGCUG---AAGCCGGAguuCGGGUUcUG- -5'
26610 3' -55.5 NC_005357.1 + 35183 0.7 0.401155
Target:  5'- cGGCGACaUCGGCC-CGcGCCaguggccgaaguugCAGGGCu -3'
miRNA:   3'- -CCGCUGaAGCCGGaGUuCGG--------------GUUCUG- -5'
26610 3' -55.5 NC_005357.1 + 33852 0.71 0.325022
Target:  5'- aGGcCGcACgcgCGGCCUaCGAcGCCCAGGAUg -3'
miRNA:   3'- -CC-GC-UGaa-GCCGGA-GUU-CGGGUUCUG- -5'
26610 3' -55.5 NC_005357.1 + 33085 0.67 0.547818
Target:  5'- aGCGACgcggCGGCCUaCAuccucGCCCAuGAa -3'
miRNA:   3'- cCGCUGaa--GCCGGA-GUu----CGGGUuCUg -5'
26610 3' -55.5 NC_005357.1 + 32811 0.68 0.503529
Target:  5'- cGCGACUUgaaGGCCcugaacgucgaacUCAcGCCCGAGGu -3'
miRNA:   3'- cCGCUGAAg--CCGG-------------AGUuCGGGUUCUg -5'
26610 3' -55.5 NC_005357.1 + 31710 0.66 0.601092
Target:  5'- aGGCGACgacgcauucaagcaaUCGGCCg-AGGCCgugcgcgcugccguCAAGACg -3'
miRNA:   3'- -CCGCUGa--------------AGCCGGagUUCGG--------------GUUCUG- -5'
26610 3' -55.5 NC_005357.1 + 30148 0.66 0.614549
Target:  5'- cGGCacGCUg-GGCCagCAAcccGCCCAGGACa -3'
miRNA:   3'- -CCGc-UGAagCCGGa-GUU---CGGGUUCUG- -5'
26610 3' -55.5 NC_005357.1 + 29056 0.67 0.530369
Target:  5'- cGGCGGCUcguaGGCCaucagcgggucauccUCGGGCgCCGAGGu -3'
miRNA:   3'- -CCGCUGAag--CCGG---------------AGUUCG-GGUUCUg -5'
26610 3' -55.5 NC_005357.1 + 28897 0.68 0.494011
Target:  5'- aGGCGGCcgacagUUCGGCgCggacggCAAaccgcuuaccucGCCCAAGGCg -3'
miRNA:   3'- -CCGCUG------AAGCCG-Ga-----GUU------------CGGGUUCUG- -5'
26610 3' -55.5 NC_005357.1 + 27839 0.66 0.625782
Target:  5'- cGGUGGCgcCGGCCgcgCcgcuGCUCAAGAa -3'
miRNA:   3'- -CCGCUGaaGCCGGa--Guu--CGGGUUCUg -5'
26610 3' -55.5 NC_005357.1 + 27427 0.68 0.494011
Target:  5'- uGGCGcaccGCgcccggCGGCCgCAGGCCCu-GGCg -3'
miRNA:   3'- -CCGC----UGaa----GCCGGaGUUCGGGuuCUG- -5'
26610 3' -55.5 NC_005357.1 + 26971 0.68 0.494011
Target:  5'- cGGCaGCUUCGGCCaaGGGCgcgUCAAGAa -3'
miRNA:   3'- -CCGcUGAAGCCGGagUUCG---GGUUCUg -5'
26610 3' -55.5 NC_005357.1 + 24581 0.68 0.48249
Target:  5'- gGGCGACga-GGCCacgguggcgggcaUCAAcccGCCCGAGGg -3'
miRNA:   3'- -CCGCUGaagCCGG-------------AGUU---CGGGUUCUg -5'
26610 3' -55.5 NC_005357.1 + 23215 0.7 0.385411
Target:  5'- cGGUGAaUUCGGCCUCGgccucGGCCaccGACc -3'
miRNA:   3'- -CCGCUgAAGCCGGAGU-----UCGGguuCUG- -5'
26610 3' -55.5 NC_005357.1 + 22247 0.66 0.63702
Target:  5'- gGGCGACgacaaGGCg--AAGCCgCAAGGCg -3'
miRNA:   3'- -CCGCUGaag--CCGgagUUCGG-GUUCUG- -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.