miRNA display CGI


Results 1 - 20 of 27 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
27029 3' -57.9 NC_005832.1 + 1468 0.66 0.77673
Target:  5'- ----gGGGUugccgugaggaccaaGAGGGGGGCCugUGGCu -3'
miRNA:   3'- guuugCCCAc--------------CUCCUCUCGGugGCCG- -5'
27029 3' -57.9 NC_005832.1 + 2733 0.66 0.747044
Target:  5'- uGAGCaGGGaGGAcaugucuauguuGGAGGGCCACCccGCg -3'
miRNA:   3'- gUUUG-CCCaCCU------------CCUCUCGGUGGc-CG- -5'
27029 3' -57.9 NC_005832.1 + 72358 0.67 0.717376
Target:  5'- cCAGACGGaGacauUGGuaGGGAGGGCCAaCGGa -3'
miRNA:   3'- -GUUUGCC-C----ACC--UCCUCUCGGUgGCCg -5'
27029 3' -57.9 NC_005832.1 + 19652 0.67 0.707326
Target:  5'- -cGGCGGGUGGgagacccgcagcGGGuucgaaAGCCgcaGCCGGCg -3'
miRNA:   3'- guUUGCCCACC------------UCCuc----UCGG---UGGCCG- -5'
27029 3' -57.9 NC_005832.1 + 32167 0.67 0.707326
Target:  5'- gGAGCGGc--GAGGGGAGuCCA-CGGCa -3'
miRNA:   3'- gUUUGCCcacCUCCUCUC-GGUgGCCG- -5'
27029 3' -57.9 NC_005832.1 + 79182 0.67 0.707326
Target:  5'- gGAAgGGaGUcGAGGAGcucauggaGGCCGCCGGg -3'
miRNA:   3'- gUUUgCC-CAcCUCCUC--------UCGGUGGCCg -5'
27029 3' -57.9 NC_005832.1 + 42522 0.67 0.707326
Target:  5'- gCGGACGcGUGcugcuccauGAGGAGGGCCGCCauGCu -3'
miRNA:   3'- -GUUUGCcCAC---------CUCCUCUCGGUGGc-CG- -5'
27029 3' -57.9 NC_005832.1 + 68045 0.67 0.697211
Target:  5'- ---cCGaGGUGGAGGAGAGggGCggaGGCa -3'
miRNA:   3'- guuuGC-CCACCUCCUCUCggUGg--CCG- -5'
27029 3' -57.9 NC_005832.1 + 21129 0.67 0.687041
Target:  5'- -cGGCGGGagcugggauccUGGAGGAcaGAGCCAguUCaGGCg -3'
miRNA:   3'- guUUGCCC-----------ACCUCCU--CUCGGU--GG-CCG- -5'
27029 3' -57.9 NC_005832.1 + 21277 0.68 0.656289
Target:  5'- gGGACGGGgugugGGAGGAaAGCUcCUGGa -3'
miRNA:   3'- gUUUGCCCa----CCUCCUcUCGGuGGCCg -5'
27029 3' -57.9 NC_005832.1 + 56532 0.68 0.656289
Target:  5'- gAGugGGGUuccuggccGGcAGGAGGGCCAuaggaccccucCUGGCc -3'
miRNA:   3'- gUUugCCCA--------CC-UCCUCUCGGU-----------GGCCG- -5'
27029 3' -57.9 NC_005832.1 + 78256 0.68 0.645988
Target:  5'- -uGACuGGGUuccaGGccaggaaccuGGGAGAGCUACCGGg -3'
miRNA:   3'- guUUG-CCCA----CC----------UCCUCUCGGUGGCCg -5'
27029 3' -57.9 NC_005832.1 + 39804 0.68 0.645988
Target:  5'- uGGACGaGUcGAGGGGAGCCGCagacauugUGGCg -3'
miRNA:   3'- gUUUGCcCAcCUCCUCUCGGUG--------GCCG- -5'
27029 3' -57.9 NC_005832.1 + 11021 0.69 0.60887
Target:  5'- cCGAGaGGGUcaGGGGGAGggugagcuaccucaaGGCCGCCaGGCc -3'
miRNA:   3'- -GUUUgCCCA--CCUCCUC---------------UCGGUGG-CCG- -5'
27029 3' -57.9 NC_005832.1 + 16440 0.69 0.604753
Target:  5'- cCGGAUGGGUGGGGGuccugcaGGCUAagGGCa -3'
miRNA:   3'- -GUUUGCCCACCUCCuc-----UCGGUggCCG- -5'
27029 3' -57.9 NC_005832.1 + 29893 0.69 0.574015
Target:  5'- gGGGCGgcGGUGGAGGccaagauGAGgCACaCGGCa -3'
miRNA:   3'- gUUUGC--CCACCUCCu------CUCgGUG-GCCG- -5'
27029 3' -57.9 NC_005832.1 + 21068 0.69 0.572995
Target:  5'- aCAAGCaGGG-GGAGGAG-GCUggugauuGCCGGg -3'
miRNA:   3'- -GUUUG-CCCaCCUCCUCuCGG-------UGGCCg -5'
27029 3' -57.9 NC_005832.1 + 28354 0.69 0.55372
Target:  5'- --uACGaGGUGGuuGGcGGucGCCACCGGCu -3'
miRNA:   3'- guuUGC-CCACCu-CC-UCu-CGGUGGCCG- -5'
27029 3' -57.9 NC_005832.1 + 1827 0.7 0.543652
Target:  5'- gGGGCGGGUGuAGGGGucuaCGCCGGUc -3'
miRNA:   3'- gUUUGCCCACcUCCUCucg-GUGGCCG- -5'
27029 3' -57.9 NC_005832.1 + 52076 0.7 0.543652
Target:  5'- aCGAAaaGGUGGAGGAGAuaaagGCCucucacgUCGGCa -3'
miRNA:   3'- -GUUUgcCCACCUCCUCU-----CGGu------GGCCG- -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.