miRNA display CGI


Results 1 - 20 of 49 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
16366 5' -54.4 NC_004084.1 + 1060 1.12 0.000901
Target:  5'- aGGUCGAACAGCCACUCGUCGCGCAUCu -3'
miRNA:   3'- -CCAGCUUGUCGGUGAGCAGCGCGUAG- -5'
16366 5' -54.4 NC_004084.1 + 29396 0.85 0.069903
Target:  5'- cGGUCGGGCGGCCACUCcUgGgGCGUCg -3'
miRNA:   3'- -CCAGCUUGUCGGUGAGcAgCgCGUAG- -5'
16366 5' -54.4 NC_004084.1 + 3072 0.75 0.297015
Target:  5'- cGUCGAcgGGCCGCUCGUCGacguGCGUUc -3'
miRNA:   3'- cCAGCUugUCGGUGAGCAGCg---CGUAG- -5'
16366 5' -54.4 NC_004084.1 + 33785 0.75 0.297015
Target:  5'- cGGUCGcgUAGCCACUCGcccgguUCGUGCcggaGUCa -3'
miRNA:   3'- -CCAGCuuGUCGGUGAGC------AGCGCG----UAG- -5'
16366 5' -54.4 NC_004084.1 + 4348 0.75 0.289692
Target:  5'- gGGUCGGcucGCCcgucucCUCGUCGCGCGUCc -3'
miRNA:   3'- -CCAGCUuguCGGu-----GAGCAGCGCGUAG- -5'
16366 5' -54.4 NC_004084.1 + 5621 0.75 0.322981
Target:  5'- cGGUCGGaaccuccugaaGCAGCCGCUCcugguucucgucgaaGUC-CGCAUCg -3'
miRNA:   3'- -CCAGCU-----------UGUCGGUGAG---------------CAGcGCGUAG- -5'
16366 5' -54.4 NC_004084.1 + 47361 0.74 0.352279
Target:  5'- cGUCG-GCGGCCGCcccuUCGUC-CGCGUCg -3'
miRNA:   3'- cCAGCuUGUCGGUG----AGCAGcGCGUAG- -5'
16366 5' -54.4 NC_004084.1 + 27696 0.74 0.32456
Target:  5'- cGGUCGAACAGCCcaucgaucagcucCUCGaCGCGC-UCc -3'
miRNA:   3'- -CCAGCUUGUCGGu------------GAGCaGCGCGuAG- -5'
16366 5' -54.4 NC_004084.1 + 21256 0.74 0.343955
Target:  5'- uGUCGAAC-GCCccgaGCUCGUCGCGaugAUCa -3'
miRNA:   3'- cCAGCUUGuCGG----UGAGCAGCGCg--UAG- -5'
16366 5' -54.4 NC_004084.1 + 25827 0.73 0.369351
Target:  5'- cGGUCGcgUAGCCACUCGcC-CGCuUCg -3'
miRNA:   3'- -CCAGCuuGUCGGUGAGCaGcGCGuAG- -5'
16366 5' -54.4 NC_004084.1 + 35335 0.72 0.443072
Target:  5'- aGGUCGccGACGuCCAcCUCGUCGCGUcgCc -3'
miRNA:   3'- -CCAGC--UUGUcGGU-GAGCAGCGCGuaG- -5'
16366 5' -54.4 NC_004084.1 + 5154 0.71 0.503463
Target:  5'- cGUCGccCGGCCcgauCUCGUCGC-CGUCg -3'
miRNA:   3'- cCAGCuuGUCGGu---GAGCAGCGcGUAG- -5'
16366 5' -54.4 NC_004084.1 + 16628 0.7 0.556368
Target:  5'- aGGUCGAucgugAC-GCC-CUCGUCGuCGaCGUCg -3'
miRNA:   3'- -CCAGCU-----UGuCGGuGAGCAGC-GC-GUAG- -5'
16366 5' -54.4 NC_004084.1 + 57611 0.7 0.52439
Target:  5'- gGGUUGAGgAGUucgCGCUUcgucucgagGUCGCGCGUCg -3'
miRNA:   3'- -CCAGCUUgUCG---GUGAG---------CAGCGCGUAG- -5'
16366 5' -54.4 NC_004084.1 + 50975 0.7 0.567158
Target:  5'- cGUCGGACuccgaggucucGCCAC-CGUCG-GCAUCg -3'
miRNA:   3'- cCAGCUUGu----------CGGUGaGCAGCgCGUAG- -5'
16366 5' -54.4 NC_004084.1 + 49434 0.7 0.52439
Target:  5'- cGUCGAACucguagcuGCC-CUCGUCGcCGcCGUCu -3'
miRNA:   3'- cCAGCUUGu-------CGGuGAGCAGC-GC-GUAG- -5'
16366 5' -54.4 NC_004084.1 + 38485 0.69 0.621726
Target:  5'- gGGUUGAACGGauccuCGCccucgaUCGUCGCgaGCAUCg -3'
miRNA:   3'- -CCAGCUUGUCg----GUG------AGCAGCG--CGUAG- -5'
16366 5' -54.4 NC_004084.1 + 37325 0.69 0.621726
Target:  5'- cGGUCGAAguGCUccguacuCUCGUCaccaGCGUCg -3'
miRNA:   3'- -CCAGCUUguCGGu------GAGCAGcg--CGUAG- -5'
16366 5' -54.4 NC_004084.1 + 19643 0.69 0.632704
Target:  5'- --aCGAGC-GCCcgaaGgUCGUCGUGCGUCa -3'
miRNA:   3'- ccaGCUUGuCGG----UgAGCAGCGCGUAG- -5'
16366 5' -54.4 NC_004084.1 + 22512 0.69 0.599808
Target:  5'- cGUCGAcGCGGCCACUCcagCGgGaCGUCc -3'
miRNA:   3'- cCAGCU-UGUCGGUGAGca-GCgC-GUAG- -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.