miRNA display CGI


Results 1 - 20 of 100 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
23117 3' -55.6 NC_005178.1 + 33908 0.66 0.600562
Target:  5'- cGCCUGGcGGCgAUGCucggcGGCCGGuGCCGg -3'
miRNA:   3'- cCGGGUC-CUG-UACGuu---UUGGUC-CGGC- -5'
23117 3' -55.6 NC_005178.1 + 17805 0.66 0.600562
Target:  5'- cGCCCugauGGACcagGUGCuguACaacaAGGCCGa -3'
miRNA:   3'- cCGGGu---CCUG---UACGuuuUGg---UCCGGC- -5'
23117 3' -55.6 NC_005178.1 + 19679 0.66 0.600562
Target:  5'- gGGUCCAGGAgCAcGUccuGGACCucGCCGa -3'
miRNA:   3'- -CCGGGUCCU-GUaCGu--UUUGGucCGGC- -5'
23117 3' -55.6 NC_005178.1 + 31756 0.66 0.593788
Target:  5'- uGGCCCgAGGuaauGCcgGCGAcgaccuacagggggcGGCCAGuGCUGg -3'
miRNA:   3'- -CCGGG-UCC----UGuaCGUU---------------UUGGUC-CGGC- -5'
23117 3' -55.6 NC_005178.1 + 3359 0.66 0.58928
Target:  5'- aGGUCCAGcACccgAUGCAcgGCCGgcccuuccGGCCGg -3'
miRNA:   3'- -CCGGGUCcUG---UACGUuuUGGU--------CCGGC- -5'
23117 3' -55.6 NC_005178.1 + 27882 0.66 0.58928
Target:  5'- cGCCCAGGGCAacUGgGucAACgGGGCg- -3'
miRNA:   3'- cCGGGUCCUGU--ACgUu-UUGgUCCGgc -5'
23117 3' -55.6 NC_005178.1 + 27457 0.66 0.58928
Target:  5'- cGCUCGaccuGGaACAUGC---GCCGGGCCa -3'
miRNA:   3'- cCGGGU----CC-UGUACGuuuUGGUCCGGc -5'
23117 3' -55.6 NC_005178.1 + 4082 0.66 0.58928
Target:  5'- uGGUCCAGGucgGCAcggugUGCAGGugCuGaGCCGu -3'
miRNA:   3'- -CCGGGUCC---UGU-----ACGUUUugGuC-CGGC- -5'
23117 3' -55.6 NC_005178.1 + 29771 0.66 0.588153
Target:  5'- uGGCCuauuucaCAGGaACA-GCGAacAACCcGGCCGa -3'
miRNA:   3'- -CCGG-------GUCC-UGUaCGUU--UUGGuCCGGC- -5'
23117 3' -55.6 NC_005178.1 + 5289 0.66 0.588153
Target:  5'- cGUUCAGGGCcgGCGcgagcugGAACU-GGCCGa -3'
miRNA:   3'- cCGGGUCCUGuaCGU-------UUUGGuCCGGC- -5'
23117 3' -55.6 NC_005178.1 + 21009 0.66 0.578036
Target:  5'- cGCCguGGGCGgcaGCAccGCCAccGGCCu -3'
miRNA:   3'- cCGGguCCUGUa--CGUuuUGGU--CCGGc -5'
23117 3' -55.6 NC_005178.1 + 11985 0.66 0.578036
Target:  5'- aGCCCuGGuGCggGCugguACCGGGCUGc -3'
miRNA:   3'- cCGGGuCC-UGuaCGuuu-UGGUCCGGC- -5'
23117 3' -55.6 NC_005178.1 + 11888 0.66 0.578036
Target:  5'- cGCCCAGGcCGUGCGGGA--GGuGCUGu -3'
miRNA:   3'- cCGGGUCCuGUACGUUUUggUC-CGGC- -5'
23117 3' -55.6 NC_005178.1 + 2718 0.66 0.578036
Target:  5'- aGCCC-GGugGUgGCGGcGCCAcGCCGg -3'
miRNA:   3'- cCGGGuCCugUA-CGUUuUGGUcCGGC- -5'
23117 3' -55.6 NC_005178.1 + 9345 0.66 0.576914
Target:  5'- cGCUCAGGAgCGUGCc--GCCAGcagucgccagggcGCCGg -3'
miRNA:   3'- cCGGGUCCU-GUACGuuuUGGUC-------------CGGC- -5'
23117 3' -55.6 NC_005178.1 + 30780 0.66 0.575792
Target:  5'- --aCCAGGACAUccgccugGCAGcggucgcggccucGACCuGGGCCGg -3'
miRNA:   3'- ccgGGUCCUGUA-------CGUU-------------UUGG-UCCGGC- -5'
23117 3' -55.6 NC_005178.1 + 2168 0.66 0.566839
Target:  5'- uGGCCCucgcuGGuguuCGUcaGCA--GCCGGGCCu -3'
miRNA:   3'- -CCGGGu----CCu---GUA--CGUuuUGGUCCGGc -5'
23117 3' -55.6 NC_005178.1 + 17518 0.66 0.566839
Target:  5'- aGUCCAGGaaacgGCcgGCAGcgGGCgCGGGCUGg -3'
miRNA:   3'- cCGGGUCC-----UGuaCGUU--UUG-GUCCGGC- -5'
23117 3' -55.6 NC_005178.1 + 15529 0.66 0.566839
Target:  5'- cGGCUU-GGugGUGUccagcaGGAACCAGGCgGu -3'
miRNA:   3'- -CCGGGuCCugUACG------UUUUGGUCCGgC- -5'
23117 3' -55.6 NC_005178.1 + 16825 0.66 0.555699
Target:  5'- uGGgUCAGGGCGgcgauggGCuuGGCCuGGCCc -3'
miRNA:   3'- -CCgGGUCCUGUa------CGuuUUGGuCCGGc -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.