miRNA display CGI


Results 1 - 20 of 30 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
20607 3' -57.3 NC_004688.1 + 54377 0.66 0.821524
Target:  5'- --aGCCAGCgCUGcagGGUCagggcGCGCCGGc -3'
miRNA:   3'- cagCGGUUG-GACua-CCAGc----CGUGGCC- -5'
20607 3' -57.3 NC_004688.1 + 107215 0.66 0.809317
Target:  5'- -aCGCCucggcacgggacuGCUUGGagUGGUCGGC-CUGGa -3'
miRNA:   3'- caGCGGu------------UGGACU--ACCAGCCGuGGCC- -5'
20607 3' -57.3 NC_004688.1 + 87217 0.66 0.803986
Target:  5'- -cCGCCcGCC-GAUGGUCcagauGGCAUCGc -3'
miRNA:   3'- caGCGGuUGGaCUACCAG-----CCGUGGCc -5'
20607 3' -57.3 NC_004688.1 + 8467 0.66 0.801299
Target:  5'- -cCGcCCGACCUGAccguugagcaggugUGGcCGGCggagcaggugugGCCGGu -3'
miRNA:   3'- caGC-GGUUGGACU--------------ACCaGCCG------------UGGCC- -5'
20607 3' -57.3 NC_004688.1 + 105059 0.66 0.794977
Target:  5'- cGUUGUCGACCgUGAUGcaccgcGUCGGgacagauucCACCGGc -3'
miRNA:   3'- -CAGCGGUUGG-ACUAC------CAGCC---------GUGGCC- -5'
20607 3' -57.3 NC_004688.1 + 79245 0.67 0.776522
Target:  5'- -gCGCCucccCCgUGGUGGggGGCGCCGa -3'
miRNA:   3'- caGCGGuu--GG-ACUACCagCCGUGGCc -5'
20607 3' -57.3 NC_004688.1 + 51449 0.67 0.776522
Target:  5'- -aCGCaucggGAUC-GAUGGUCGGCaACUGGa -3'
miRNA:   3'- caGCGg----UUGGaCUACCAGCCG-UGGCC- -5'
20607 3' -57.3 NC_004688.1 + 14437 0.67 0.776522
Target:  5'- -cCGCCGGCCaagcucgaaGAUGG-CGaacaGCACCGGa -3'
miRNA:   3'- caGCGGUUGGa--------CUACCaGC----CGUGGCC- -5'
20607 3' -57.3 NC_004688.1 + 109888 0.67 0.776522
Target:  5'- cGUCGaCAAUCUcGAUGGUCacGGCGaCGGg -3'
miRNA:   3'- -CAGCgGUUGGA-CUACCAG--CCGUgGCC- -5'
20607 3' -57.3 NC_004688.1 + 36163 0.67 0.767095
Target:  5'- gGUUGaCCAGgCgGGUGccGUCGGCGCCGa -3'
miRNA:   3'- -CAGC-GGUUgGaCUAC--CAGCCGUGGCc -5'
20607 3' -57.3 NC_004688.1 + 107982 0.67 0.757546
Target:  5'- cGUCGCCAaaGCCUccgcuAUGGauUgGGCACgGGg -3'
miRNA:   3'- -CAGCGGU--UGGAc----UACC--AgCCGUGgCC- -5'
20607 3' -57.3 NC_004688.1 + 51503 0.67 0.756585
Target:  5'- cGUCgGCCGACaaGGUGGUgaacuucUGGCGCCa- -3'
miRNA:   3'- -CAG-CGGUUGgaCUACCA-------GCCGUGGcc -5'
20607 3' -57.3 NC_004688.1 + 82483 0.67 0.747885
Target:  5'- gGUCGCCGaaguuggugaccGCCaGGUGGcCGG-ACUGGg -3'
miRNA:   3'- -CAGCGGU------------UGGaCUACCaGCCgUGGCC- -5'
20607 3' -57.3 NC_004688.1 + 77446 0.67 0.747885
Target:  5'- -gUGCCAagguagACCuucaacggaucgUGAUGGUCGcCGCCGGa -3'
miRNA:   3'- caGCGGU------UGG------------ACUACCAGCcGUGGCC- -5'
20607 3' -57.3 NC_004688.1 + 107889 0.67 0.747885
Target:  5'- aGUUGCCGGCggGGUGGuUCaGCACCa- -3'
miRNA:   3'- -CAGCGGUUGgaCUACC-AGcCGUGGcc -5'
20607 3' -57.3 NC_004688.1 + 25595 0.68 0.718324
Target:  5'- -cCG-CAGCCUGAUGG-CGGCcagcGCCGc -3'
miRNA:   3'- caGCgGUUGGACUACCaGCCG----UGGCc -5'
20607 3' -57.3 NC_004688.1 + 106936 0.68 0.698229
Target:  5'- aUCGCCAACCUcGGUGG-CGaGC-CCa- -3'
miRNA:   3'- cAGCGGUUGGA-CUACCaGC-CGuGGcc -5'
20607 3' -57.3 NC_004688.1 + 66490 0.68 0.676889
Target:  5'- aUgGCCGACCUcGGUcuccuugacccagGGuUCGGCACCGa -3'
miRNA:   3'- cAgCGGUUGGA-CUA-------------CC-AGCCGUGGCc -5'
20607 3' -57.3 NC_004688.1 + 107433 0.69 0.655385
Target:  5'- cUCGCCAuagcGCCUGAaggugaggguuaGGUCGGCAUCc- -3'
miRNA:   3'- cAGCGGU----UGGACUa-----------CCAGCCGUGGcc -5'
20607 3' -57.3 NC_004688.1 + 109032 0.69 0.636884
Target:  5'- -gCGCCAaGCUUGGUGG-CGGCGgCGa -3'
miRNA:   3'- caGCGGU-UGGACUACCaGCCGUgGCc -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.