miRNA display CGI


Results 1 - 20 of 21 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
6999 3' -51.9 NC_001875.2 + 51773 0.66 0.981692
Target:  5'- uGCCGCCAAaggcguUGGGCG--AGGcguUUUUCAu -3'
miRNA:   3'- -CGGCGGUU------ACCUGCcgUCCu--AAAAGU- -5'
6999 3' -51.9 NC_001875.2 + 126104 0.66 0.979476
Target:  5'- gGCCGCCGA---AUGGCGGGuUUUgcgCAa -3'
miRNA:   3'- -CGGCGGUUaccUGCCGUCCuAAAa--GU- -5'
6999 3' -51.9 NC_001875.2 + 98699 0.66 0.979476
Target:  5'- -aCGCCAauggacagguGUGGACGGCcGaGAcgUUCAc -3'
miRNA:   3'- cgGCGGU----------UACCUGCCGuC-CUaaAAGU- -5'
6999 3' -51.9 NC_001875.2 + 90455 0.66 0.979476
Target:  5'- aGgCGUCGGUGGGCGGCGcGuaaUUUCGc -3'
miRNA:   3'- -CgGCGGUUACCUGCCGUcCua-AAAGU- -5'
6999 3' -51.9 NC_001875.2 + 41022 0.66 0.979476
Target:  5'- gGUCGCCAaccgcguggccGUGGACGGC---GUUUUUAc -3'
miRNA:   3'- -CGGCGGU-----------UACCUGCCGuccUAAAAGU- -5'
6999 3' -51.9 NC_001875.2 + 22990 0.66 0.979244
Target:  5'- cGCCGCCAAgaucugcgcguuuUGGGCGcGCAccGUgUUCAg -3'
miRNA:   3'- -CGGCGGUU-------------ACCUGC-CGUccUAaAAGU- -5'
6999 3' -51.9 NC_001875.2 + 29784 0.66 0.971637
Target:  5'- gGCCGCgGGUGGACGGgcguguCAGGc------ -3'
miRNA:   3'- -CGGCGgUUACCUGCC------GUCCuaaaagu -5'
6999 3' -51.9 NC_001875.2 + 89999 0.67 0.965337
Target:  5'- cGCCGCCGcgGcGCGGCAacuGGAcgcgCAa -3'
miRNA:   3'- -CGGCGGUuaCcUGCCGU---CCUaaaaGU- -5'
6999 3' -51.9 NC_001875.2 + 121288 0.67 0.965337
Target:  5'- aGCUGCCuGAUGGugGGCGugcuUUUUCc -3'
miRNA:   3'- -CGGCGG-UUACCugCCGUccu-AAAAGu -5'
6999 3' -51.9 NC_001875.2 + 114744 0.67 0.965337
Target:  5'- gGCCGCCAGUGGcgcGCGGCu--------- -3'
miRNA:   3'- -CGGCGGUUACC---UGCCGuccuaaaagu -5'
6999 3' -51.9 NC_001875.2 + 122041 0.67 0.961844
Target:  5'- aGCCGCCGAUGGcgcCGuGCAaguacaccccGGAgcgggUUCAg -3'
miRNA:   3'- -CGGCGGUUACCu--GC-CGU----------CCUaa---AAGU- -5'
6999 3' -51.9 NC_001875.2 + 115000 0.67 0.954142
Target:  5'- cCCGCguAgcgaauCGGCGGGGUUUUCAg -3'
miRNA:   3'- cGGCGguUaccu--GCCGUCCUAAAAGU- -5'
6999 3' -51.9 NC_001875.2 + 62218 0.67 0.954142
Target:  5'- uGCCGCgcgaCGAUGGACaGGguGGAc----- -3'
miRNA:   3'- -CGGCG----GUUACCUG-CCguCCUaaaagu -5'
6999 3' -51.9 NC_001875.2 + 28839 0.68 0.949922
Target:  5'- gGUgGCCGAcacGGACGGCGGGcacuugUCGc -3'
miRNA:   3'- -CGgCGGUUa--CCUGCCGUCCuaaa--AGU- -5'
6999 3' -51.9 NC_001875.2 + 68554 0.68 0.940727
Target:  5'- uGCCGCCGcgGcGGCGGCGGu------- -3'
miRNA:   3'- -CGGCGGUuaC-CUGCCGUCcuaaaagu -5'
6999 3' -51.9 NC_001875.2 + 87132 0.68 0.935746
Target:  5'- cGCUGCCGGUGcucaaguaccgcGugGGCAGcGAgg-UCAc -3'
miRNA:   3'- -CGGCGGUUAC------------CugCCGUC-CUaaaAGU- -5'
6999 3' -51.9 NC_001875.2 + 115874 0.69 0.906961
Target:  5'- gGCCGCUc-UGGcCgGGCAGGAUgcggUCAa -3'
miRNA:   3'- -CGGCGGuuACCuG-CCGUCCUAaa--AGU- -5'
6999 3' -51.9 NC_001875.2 + 18175 0.69 0.893652
Target:  5'- cGCCGCCAcuGUGGcggugcCGGCGGGcgUa--- -3'
miRNA:   3'- -CGGCGGU--UACCu-----GCCGUCCuaAaagu -5'
6999 3' -51.9 NC_001875.2 + 91878 0.7 0.886623
Target:  5'- cGCCuGCUggUGcGGCGGCGGGucgggCAa -3'
miRNA:   3'- -CGG-CGGuuAC-CUGCCGUCCuaaaaGU- -5'
6999 3' -51.9 NC_001875.2 + 54465 0.71 0.847934
Target:  5'- cGCCGCaCAgcGUGuGCGGCAGGAc-UUCGc -3'
miRNA:   3'- -CGGCG-GU--UACcUGCCGUCCUaaAAGU- -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.