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
17479 5' -53.8 NC_004456.1 + 22737 0.65 0.716223
Target:  5'- cGCCUGGUUGCcgguacgacuuuugAACGGCAGaaCCAugaAGGCu -3'
miRNA:   3'- -UGGACUAGUG--------------UUGUCGUCc-GGU---UCCG- -5'
17479 5' -53.8 NC_004456.1 + 6868 0.66 0.708399
Target:  5'- cACCUGGacugaaUCACcagAGCAGCcuGCCGAuGGUg -3'
miRNA:   3'- -UGGACU------AGUG---UUGUCGucCGGUU-CCG- -5'
17479 5' -53.8 NC_004456.1 + 861 0.66 0.674474
Target:  5'- gGCCa-GUCGCAAgAGCaAGGCCAacugcaAGGUc -3'
miRNA:   3'- -UGGacUAGUGUUgUCG-UCCGGU------UCCG- -5'
17479 5' -53.8 NC_004456.1 + 30250 0.67 0.651619
Target:  5'- cACCUGAgUCugAACAgGCAuGGCgugaUAAGGUg -3'
miRNA:   3'- -UGGACU-AGugUUGU-CGU-CCG----GUUCCG- -5'
17479 5' -53.8 NC_004456.1 + 42572 0.67 0.651619
Target:  5'- -aCUGGUCugAGCaAGCugaggaAGGCagCGAGGCa -3'
miRNA:   3'- ugGACUAGugUUG-UCG------UCCG--GUUCCG- -5'
17479 5' -53.8 NC_004456.1 + 32184 0.67 0.603478
Target:  5'- gACCUGAcUACGccgccagGCAGCAaccugcuGGCCGGuGGCu -3'
miRNA:   3'- -UGGACUaGUGU-------UGUCGU-------CCGGUU-CCG- -5'
17479 5' -53.8 NC_004456.1 + 19795 0.68 0.594338
Target:  5'- aGCC---UCAgAAguGCAGGCCcuGGCa -3'
miRNA:   3'- -UGGacuAGUgUUguCGUCCGGuuCCG- -5'
17479 5' -53.8 NC_004456.1 + 36144 0.68 0.581807
Target:  5'- aGCCUGAauggggugauuuaUCcagaauACAAaGGCGGGUUAAGGCa -3'
miRNA:   3'- -UGGACU-------------AG------UGUUgUCGUCCGGUUCCG- -5'
17479 5' -53.8 NC_004456.1 + 18298 0.68 0.571595
Target:  5'- cACCgg--CACG--AGCAGGCCAgAGGCc -3'
miRNA:   3'- -UGGacuaGUGUugUCGUCCGGU-UCCG- -5'
17479 5' -53.8 NC_004456.1 + 35539 0.68 0.549067
Target:  5'- uACCUGAacCACAAguggaAGC-GGCCAAGcGCg -3'
miRNA:   3'- -UGGACUa-GUGUUg----UCGuCCGGUUC-CG- -5'
17479 5' -53.8 NC_004456.1 + 25690 0.69 0.515826
Target:  5'- gUCUGGcgaaUCACAucacCAGCAGGaCCA-GGCa -3'
miRNA:   3'- uGGACU----AGUGUu---GUCGUCC-GGUuCCG- -5'
17479 5' -53.8 NC_004456.1 + 41288 0.69 0.504924
Target:  5'- cACCaUGccaUACGGCGGguGGCCA-GGCg -3'
miRNA:   3'- -UGG-ACua-GUGUUGUCguCCGGUuCCG- -5'
17479 5' -53.8 NC_004456.1 + 39159 0.7 0.472844
Target:  5'- uCCUGGUUAUgggcuucacuGGCaAGCAGGCCGccgccaucaaagAGGCa -3'
miRNA:   3'- uGGACUAGUG----------UUG-UCGUCCGGU------------UCCG- -5'
17479 5' -53.8 NC_004456.1 + 16941 0.71 0.373297
Target:  5'- aGCCUGGg-ACAAaaaaGGCAGGCCAAuuguaagcauugcGGCg -3'
miRNA:   3'- -UGGACUagUGUUg---UCGUCCGGUU-------------CCG- -5'
17479 5' -53.8 NC_004456.1 + 15931 0.73 0.31477
Target:  5'- aGCCUGGUCGCAGCugcccguucuaagguGCucGCCAugaAGGCa -3'
miRNA:   3'- -UGGACUAGUGUUGu--------------CGucCGGU---UCCG- -5'
17479 5' -53.8 NC_004456.1 + 2877 0.73 0.305981
Target:  5'- uACCUGGcCAUgcaGGCaaAGCAGGCCAgaacAGGCg -3'
miRNA:   3'- -UGGACUaGUG---UUG--UCGUCCGGU----UCCG- -5'
17479 5' -53.8 NC_004456.1 + 4254 0.75 0.241095
Target:  5'- aACaaGAcCAcCAGCAGCuGGCCAGGGCu -3'
miRNA:   3'- -UGgaCUaGU-GUUGUCGuCCGGUUCCG- -5'
17479 5' -53.8 NC_004456.1 + 20380 0.75 0.218534
Target:  5'- aACCUGGUggccgaagcccggggCAUGACcgccgAGCAGGUCAAGGCg -3'
miRNA:   3'- -UGGACUA---------------GUGUUG-----UCGUCCGGUUCCG- -5'
17479 5' -53.8 NC_004456.1 + 22269 0.77 0.172845
Target:  5'- uGCCUGcgguuUCAUugaaauCAGCAgGGCCAAGGCg -3'
miRNA:   3'- -UGGACu----AGUGuu----GUCGU-CCGGUUCCG- -5'
17479 5' -53.8 NC_004456.1 + 24401 0.77 0.168012
Target:  5'- aGCCUGAUCACGuCAaaauuGCAGGCgGcAGGCu -3'
miRNA:   3'- -UGGACUAGUGUuGU-----CGUCCGgU-UCCG- -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.