miRNA display CGI


Results 1 - 20 of 37 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
22932 3' -55.1 NC_005137.2 + 6 0.66 0.925044
Target:  5'- -aCGCg--GGGcCAGUGAacaGCGGCGCGu -3'
miRNA:   3'- cgGCGacaCCU-GUUACUg--CGCUGCGU- -5'
22932 3' -55.1 NC_005137.2 + 13906 0.66 0.919444
Target:  5'- uGCCGCUGa--AC-AUGACGCGcUGCAc -3'
miRNA:   3'- -CGGCGACaccUGuUACUGCGCuGCGU- -5'
22932 3' -55.1 NC_005137.2 + 42343 0.66 0.919444
Target:  5'- cGUCGCgucccUGUcGGCg--GACGCGACGCu -3'
miRNA:   3'- -CGGCG-----ACAcCUGuuaCUGCGCUGCGu -5'
22932 3' -55.1 NC_005137.2 + 29703 0.66 0.9136
Target:  5'- gGCCgGUUGUGuACAGcuccggguuguUGuCGCGGCGCAc -3'
miRNA:   3'- -CGG-CGACACcUGUU-----------ACuGCGCUGCGU- -5'
22932 3' -55.1 NC_005137.2 + 46082 0.66 0.901182
Target:  5'- cGCCGCUauuuUGGACGc-GACGUGcaacACGCAc -3'
miRNA:   3'- -CGGCGAc---ACCUGUuaCUGCGC----UGCGU- -5'
22932 3' -55.1 NC_005137.2 + 112447 0.66 0.901182
Target:  5'- gGCCGUUGgacgcgGcGGCAGgaugGGCGaCGGCGCc -3'
miRNA:   3'- -CGGCGACa-----C-CUGUUa---CUGC-GCUGCGu -5'
22932 3' -55.1 NC_005137.2 + 112568 0.66 0.894613
Target:  5'- cGCCGUacuUGcACAAUGGCGCGccguGCGCGa -3'
miRNA:   3'- -CGGCGac-ACcUGUUACUGCGC----UGCGU- -5'
22932 3' -55.1 NC_005137.2 + 96270 0.67 0.887808
Target:  5'- gGCCGUugcauUGUGGcCAAcucgGACGCG-UGCAu -3'
miRNA:   3'- -CGGCG-----ACACCuGUUa---CUGCGCuGCGU- -5'
22932 3' -55.1 NC_005137.2 + 96658 0.67 0.887115
Target:  5'- cGCCGCUagucauagcgcccGUGGACAc-GACGCGcacCGUg -3'
miRNA:   3'- -CGGCGA-------------CACCUGUuaCUGCGCu--GCGu -5'
22932 3' -55.1 NC_005137.2 + 101151 0.67 0.880772
Target:  5'- gGCCGCgGuUGGACAG----GCGugGCAg -3'
miRNA:   3'- -CGGCGaC-ACCUGUUacugCGCugCGU- -5'
22932 3' -55.1 NC_005137.2 + 72473 0.67 0.880772
Target:  5'- uUCGCguucGGACAGUGGCGCcGCGUu -3'
miRNA:   3'- cGGCGaca-CCUGUUACUGCGcUGCGu -5'
22932 3' -55.1 NC_005137.2 + 74862 0.67 0.878616
Target:  5'- uGCCGCUGgacguguugGGACAagccuuuuuAUccaaaguagagaacGugGUGACGCAg -3'
miRNA:   3'- -CGGCGACa--------CCUGU---------UA--------------CugCGCUGCGU- -5'
22932 3' -55.1 NC_005137.2 + 57203 0.67 0.873508
Target:  5'- uGCCGCacaaccaUGGACAAgauUGACGCcaaACGCGu -3'
miRNA:   3'- -CGGCGac-----ACCUGUU---ACUGCGc--UGCGU- -5'
22932 3' -55.1 NC_005137.2 + 181 0.67 0.866022
Target:  5'- cUCGCUGUGGAUGuucAUGAUGgGGCaGCc -3'
miRNA:   3'- cGGCGACACCUGU---UACUGCgCUG-CGu -5'
22932 3' -55.1 NC_005137.2 + 105558 0.67 0.866022
Target:  5'- uGCCGCgacuuUGUGGACAA--ACGCGuuguCGUc -3'
miRNA:   3'- -CGGCG-----ACACCUGUUacUGCGCu---GCGu -5'
22932 3' -55.1 NC_005137.2 + 117578 0.67 0.866022
Target:  5'- cGCCGCcgGUGcGGC--UGACggGCGACGUg -3'
miRNA:   3'- -CGGCGa-CAC-CUGuuACUG--CGCUGCGu -5'
22932 3' -55.1 NC_005137.2 + 97393 0.67 0.85832
Target:  5'- uGCCGCgcaaauaaguuUGcagguUGGGCAcguacaccgGGCGCGGCGCAc -3'
miRNA:   3'- -CGGCG-----------AC-----ACCUGUua-------CUGCGCUGCGU- -5'
22932 3' -55.1 NC_005137.2 + 42194 0.67 0.85832
Target:  5'- cGCCGacagGGACGGcGACGCG-CGCu -3'
miRNA:   3'- -CGGCgacaCCUGUUaCUGCGCuGCGu -5'
22932 3' -55.1 NC_005137.2 + 61417 0.67 0.85832
Target:  5'- cGCCGCguucucaaacaUGUcgGGACGuuugccGUGuCGCGugGCAa -3'
miRNA:   3'- -CGGCG-----------ACA--CCUGU------UACuGCGCugCGU- -5'
22932 3' -55.1 NC_005137.2 + 24510 0.68 0.850408
Target:  5'- --gGCgacgGUGGugAA--ACGCGACGCAa -3'
miRNA:   3'- cggCGa---CACCugUUacUGCGCUGCGU- -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.