miRNA display CGI


Results 1 - 20 of 26 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
26005 3' -55.6 NC_005340.1 + 2814 0.66 0.550312
Target:  5'- aUCAGUCACaGCGCGCuc--GCCGGUg -3'
miRNA:   3'- cGGUCGGUGcUGCGUGcuuuCGGUCG- -5'
26005 3' -55.6 NC_005340.1 + 14971 0.66 0.550312
Target:  5'- -aCAGCCAgCGAUGCA-GAu-GCCAcGCu -3'
miRNA:   3'- cgGUCGGU-GCUGCGUgCUuuCGGU-CG- -5'
26005 3' -55.6 NC_005340.1 + 28319 0.66 0.539153
Target:  5'- cGCCGuCCAUGAUGC-CGcuGAcGCCGGUg -3'
miRNA:   3'- -CGGUcGGUGCUGCGuGC--UUuCGGUCG- -5'
26005 3' -55.6 NC_005340.1 + 21036 0.66 0.528071
Target:  5'- cUUAGCCugaGCGGCGCGC-AucGCCuGCg -3'
miRNA:   3'- cGGUCGG---UGCUGCGUGcUuuCGGuCG- -5'
26005 3' -55.6 NC_005340.1 + 27886 0.66 0.528071
Target:  5'- aGCUuGgCACGaAUGCGCGcccaAAGGCCGGUu -3'
miRNA:   3'- -CGGuCgGUGC-UGCGUGC----UUUCGGUCG- -5'
26005 3' -55.6 NC_005340.1 + 20641 0.66 0.528071
Target:  5'- aGCCGGUagu-GCGC-UGAcGGCCAGCg -3'
miRNA:   3'- -CGGUCGgugcUGCGuGCUuUCGGUCG- -5'
26005 3' -55.6 NC_005340.1 + 27694 0.66 0.517075
Target:  5'- aUCAGCUcgcaGCGGCGUAuCGcAGGGUUAGCg -3'
miRNA:   3'- cGGUCGG----UGCUGCGU-GC-UUUCGGUCG- -5'
26005 3' -55.6 NC_005340.1 + 10526 0.66 0.506171
Target:  5'- aGCgAGCCauauucACGACGCAuuaccCGcGAGCCgaccGGCg -3'
miRNA:   3'- -CGgUCGG------UGCUGCGU-----GCuUUCGG----UCG- -5'
26005 3' -55.6 NC_005340.1 + 14281 0.66 0.495367
Target:  5'- cGCCGG-UGCGGCGCAUcuucaaucagagGAuGGCCAGg -3'
miRNA:   3'- -CGGUCgGUGCUGCGUG------------CUuUCGGUCg -5'
26005 3' -55.6 NC_005340.1 + 1398 0.67 0.474083
Target:  5'- cGCCAGUcggucacaCugGAUGCAgcau-GCCAGCg -3'
miRNA:   3'- -CGGUCG--------GugCUGCGUgcuuuCGGUCG- -5'
26005 3' -55.6 NC_005340.1 + 16401 0.67 0.463614
Target:  5'- cGCCGGUguCGucACGCugGuAAGaaCCAGCa -3'
miRNA:   3'- -CGGUCGguGC--UGCGugCuUUC--GGUCG- -5'
26005 3' -55.6 NC_005340.1 + 7241 0.68 0.403517
Target:  5'- uCCuGCa--GACGCGCGAccGaCCAGCg -3'
miRNA:   3'- cGGuCGgugCUGCGUGCUuuC-GGUCG- -5'
26005 3' -55.6 NC_005340.1 + 4475 0.68 0.393988
Target:  5'- gGUCAGCgACGAUGCGC----GCCuGCa -3'
miRNA:   3'- -CGGUCGgUGCUGCGUGcuuuCGGuCG- -5'
26005 3' -55.6 NC_005340.1 + 12719 0.69 0.366292
Target:  5'- cGCUcGCaGCGACGC-CGAAAGCUgucaagacAGCg -3'
miRNA:   3'- -CGGuCGgUGCUGCGuGCUUUCGG--------UCG- -5'
26005 3' -55.6 NC_005340.1 + 15578 0.69 0.348587
Target:  5'- uGCCAGCCGacagucugguCGAUguaaGCACGcAGGCCgAGUg -3'
miRNA:   3'- -CGGUCGGU----------GCUG----CGUGCuUUCGG-UCG- -5'
26005 3' -55.6 NC_005340.1 + 9249 0.69 0.331502
Target:  5'- uGCCAGCCugucacCGGCgGCGCGucGGCaaauGGCg -3'
miRNA:   3'- -CGGUCGGu-----GCUG-CGUGCuuUCGg---UCG- -5'
26005 3' -55.6 NC_005340.1 + 17355 0.7 0.322371
Target:  5'- gGCCAGUUGCG-CGCuugccuuACGAAAGCCGu- -3'
miRNA:   3'- -CGGUCGGUGCuGCG-------UGCUUUCGGUcg -5'
26005 3' -55.6 NC_005340.1 + 9322 0.7 0.31504
Target:  5'- uGUCAGCCGCcauuugccGACGCGCc---GCCGGUg -3'
miRNA:   3'- -CGGUCGGUG--------CUGCGUGcuuuCGGUCG- -5'
26005 3' -55.6 NC_005340.1 + 11792 0.71 0.261629
Target:  5'- cGCCAGCCACGGCaGCAaauuuucCGGAcagguGUCAGg -3'
miRNA:   3'- -CGGUCGGUGCUG-CGU-------GCUUu----CGGUCg -5'
26005 3' -55.6 NC_005340.1 + 17599 0.71 0.255411
Target:  5'- cGCCAGCgugaggCACuGGCGCGCGucaguGCgCAGCa -3'
miRNA:   3'- -CGGUCG------GUG-CUGCGUGCuuu--CG-GUCG- -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.