miRNA display CGI


Results 1 - 20 of 55 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
20406 3' -62.7 NC_004688.1 + 280 0.7 0.336426
Target:  5'- -uUCGGGgggCGGCCCC---GCCCCGGUu -3'
miRNA:   3'- guGGUCUa--GCCGGGGguaCGGGGCCG- -5'
20406 3' -62.7 NC_004688.1 + 1974 1.09 0.0005
Target:  5'- uCACCAGAUCGGCCCCCAUGCCCCGGCc -3'
miRNA:   3'- -GUGGUCUAGCCGGGGGUACGGGGCCG- -5'
20406 3' -62.7 NC_004688.1 + 4388 0.67 0.469215
Target:  5'- gCGCCucagaaaugagaGGGUugaUGGUCUCgGUGCCCUGGCu -3'
miRNA:   3'- -GUGG------------UCUA---GCCGGGGgUACGGGGCCG- -5'
20406 3' -62.7 NC_004688.1 + 4595 0.66 0.506437
Target:  5'- gGCCAGGUCaaucGCUUCC-UG-CCCGGCa -3'
miRNA:   3'- gUGGUCUAGc---CGGGGGuACgGGGCCG- -5'
20406 3' -62.7 NC_004688.1 + 5499 0.67 0.478393
Target:  5'- aCGCCGccGUCGGagUCCAUGaUCCCGGCg -3'
miRNA:   3'- -GUGGUc-UAGCCggGGGUAC-GGGGCCG- -5'
20406 3' -62.7 NC_004688.1 + 6150 0.68 0.416161
Target:  5'- gCGCU-GGUCGGCCgCC--GUCCCGGUg -3'
miRNA:   3'- -GUGGuCUAGCCGGgGGuaCGGGGCCG- -5'
20406 3' -62.7 NC_004688.1 + 6695 0.69 0.348406
Target:  5'- gCGCCGccgCGGCCCaCCAggaucucuucgggGCCCCaGGCg -3'
miRNA:   3'- -GUGGUcuaGCCGGG-GGUa------------CGGGG-CCG- -5'
20406 3' -62.7 NC_004688.1 + 7858 0.7 0.321877
Target:  5'- gGCCAuagcguUCGGCCgCCA-GCCCCaGGCc -3'
miRNA:   3'- gUGGUcu----AGCCGGgGGUaCGGGG-CCG- -5'
20406 3' -62.7 NC_004688.1 + 14862 0.66 0.544864
Target:  5'- gGCCAGAggaGGCUcgacaCCCAaggcagacGCgCCCGGCg -3'
miRNA:   3'- gUGGUCUag-CCGG-----GGGUa-------CG-GGGCCG- -5'
20406 3' -62.7 NC_004688.1 + 17085 0.66 0.506437
Target:  5'- gACCAGcaucgCGGCCUgCAUcauccagucGCCuuGGCg -3'
miRNA:   3'- gUGGUCua---GCCGGGgGUA---------CGGggCCG- -5'
20406 3' -62.7 NC_004688.1 + 19691 0.7 0.336426
Target:  5'- uCGCCcauuGggCGGaaagauucagaCCCCCggGCCCCGGUg -3'
miRNA:   3'- -GUGGu---CuaGCC-----------GGGGGuaCGGGGCCG- -5'
20406 3' -62.7 NC_004688.1 + 20299 0.66 0.515942
Target:  5'- cCGCgGGGUCGGCCagguugugcaCCGUGCCaucuaGGUu -3'
miRNA:   3'- -GUGgUCUAGCCGGg---------GGUACGGgg---CCG- -5'
20406 3' -62.7 NC_004688.1 + 23947 0.66 0.544864
Target:  5'- gCGCCAGGcUCGGgaucuUCCCUAggGCgCUGGCa -3'
miRNA:   3'- -GUGGUCU-AGCC-----GGGGGUa-CGgGGCCG- -5'
20406 3' -62.7 NC_004688.1 + 24000 0.7 0.314781
Target:  5'- gGCCGGGauacugaCGGCCgCCAgcGCCCCGGa -3'
miRNA:   3'- gUGGUCUa------GCCGGgGGUa-CGGGGCCg -5'
20406 3' -62.7 NC_004688.1 + 24445 0.67 0.469215
Target:  5'- gGCguGAUCGGCCCC-AUGgggacaucgauCUUCGGCa -3'
miRNA:   3'- gUGguCUAGCCGGGGgUAC-----------GGGGCCG- -5'
20406 3' -62.7 NC_004688.1 + 26051 0.67 0.460127
Target:  5'- gCACCGGGggcaCGGCUCCgGggagGCCCgugGGCa -3'
miRNA:   3'- -GUGGUCUa---GCCGGGGgUa---CGGGg--CCG- -5'
20406 3' -62.7 NC_004688.1 + 26376 0.7 0.321877
Target:  5'- uGCCGGAcCGGCCaucgccgagCCCGcGCCCaUGGCg -3'
miRNA:   3'- gUGGUCUaGCCGG---------GGGUaCGGG-GCCG- -5'
20406 3' -62.7 NC_004688.1 + 32265 0.66 0.506437
Target:  5'- gCACCAGcugcaaccgaAUCGGCgCgCCCGUGCCCa--- -3'
miRNA:   3'- -GUGGUC----------UAGCCG-G-GGGUACGGGgccg -5'
20406 3' -62.7 NC_004688.1 + 35802 0.71 0.25623
Target:  5'- -cCCAGAaucguugucagcUUGGacgacgacgcCCCCCcgGCCCCGGCc -3'
miRNA:   3'- guGGUCU------------AGCC----------GGGGGuaCGGGGCCG- -5'
20406 3' -62.7 NC_004688.1 + 36531 0.66 0.525518
Target:  5'- cCACCGGGUCaacaCCgUCAuUGCCCaCGGCg -3'
miRNA:   3'- -GUGGUCUAGcc--GGgGGU-ACGGG-GCCG- -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.