miRNA display CGI


Results 1 - 20 of 33 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
27466 3' -53.5 NC_005869.1 + 9627 0.66 0.634635
Target:  5'- gGCGGcCUCCGCgGC-UGCGCcgggggcgGCCU-CCu -3'
miRNA:   3'- -CGUC-GAGGUGaCGuACGUG--------UGGAaGG- -5'
27466 3' -53.5 NC_005869.1 + 9212 0.66 0.623001
Target:  5'- gGCGGCgauggccucggCCACcGCcUGcCGCACCUccUCCu -3'
miRNA:   3'- -CGUCGa----------GGUGaCGuAC-GUGUGGA--AGG- -5'
27466 3' -53.5 NC_005869.1 + 18416 0.66 0.623001
Target:  5'- gGCGGCg--GCUGCG-GCGCACCc-CCa -3'
miRNA:   3'- -CGUCGaggUGACGUaCGUGUGGaaGG- -5'
27466 3' -53.5 NC_005869.1 + 12602 0.66 0.623001
Target:  5'- cGCGGCgCgGCUGCAgGC-CACCcucaacuucUUCCu -3'
miRNA:   3'- -CGUCGaGgUGACGUaCGuGUGG---------AAGG- -5'
27466 3' -53.5 NC_005869.1 + 10666 0.67 0.576662
Target:  5'- aGCGGCUCggaggggcugCACUGCcUGCACggGCUgcCCa -3'
miRNA:   3'- -CGUCGAG----------GUGACGuACGUG--UGGaaGG- -5'
27466 3' -53.5 NC_005869.1 + 10329 0.67 0.565179
Target:  5'- cGCGGgUCCACUG-GUGgGCGCggUUCCa -3'
miRNA:   3'- -CGUCgAGGUGACgUACgUGUGg-AAGG- -5'
27466 3' -53.5 NC_005869.1 + 15669 0.67 0.565179
Target:  5'- cGCAGCUgCUGCUGU-UGCACcgGCggUCCa -3'
miRNA:   3'- -CGUCGA-GGUGACGuACGUG--UGgaAGG- -5'
27466 3' -53.5 NC_005869.1 + 15994 0.68 0.553757
Target:  5'- -aGGCgCCGCUggacggggcggcGCGUGCGCGCCcaCCu -3'
miRNA:   3'- cgUCGaGGUGA------------CGUACGUGUGGaaGG- -5'
27466 3' -53.5 NC_005869.1 + 26430 0.68 0.542405
Target:  5'- uGCGGCgCCGCcGCcUGCGCGggccgccccUCUUCCu -3'
miRNA:   3'- -CGUCGaGGUGaCGuACGUGU---------GGAAGG- -5'
27466 3' -53.5 NC_005869.1 + 15634 0.68 0.542405
Target:  5'- cGCAGCcgCCGCcuccGCAaaCGCACCUcgUCCu -3'
miRNA:   3'- -CGUCGa-GGUGa---CGUacGUGUGGA--AGG- -5'
27466 3' -53.5 NC_005869.1 + 9507 0.68 0.531131
Target:  5'- cGCAGCgcggugCCGCUGCAgagggGCAgGCUgagCg -3'
miRNA:   3'- -CGUCGa-----GGUGACGUa----CGUgUGGaa-Gg -5'
27466 3' -53.5 NC_005869.1 + 24353 0.68 0.531131
Target:  5'- uGCAGCgCCAcCUGC-UGCGCcagaguACCaUCCu -3'
miRNA:   3'- -CGUCGaGGU-GACGuACGUG------UGGaAGG- -5'
27466 3' -53.5 NC_005869.1 + 28566 0.68 0.508848
Target:  5'- gGCaAGCUCCGCgccaaggGcCAUGCcacccaACACCUcUCCu -3'
miRNA:   3'- -CG-UCGAGGUGa------C-GUACG------UGUGGA-AGG- -5'
27466 3' -53.5 NC_005869.1 + 29291 0.68 0.507744
Target:  5'- aCAGCUCCcCUGCAguuccaggGCAacgcccuCACuCUUCCc -3'
miRNA:   3'- cGUCGAGGuGACGUa-------CGU-------GUG-GAAGG- -5'
27466 3' -53.5 NC_005869.1 + 20371 0.68 0.507744
Target:  5'- gGCGacGCUCC-CUGCGgcgGCGCugCUggcaucaUCCu -3'
miRNA:   3'- -CGU--CGAGGuGACGUa--CGUGugGA-------AGG- -5'
27466 3' -53.5 NC_005869.1 + 10920 0.68 0.497855
Target:  5'- -gGGCUCCAaggcGCA-GCAgGCCUUCg -3'
miRNA:   3'- cgUCGAGGUga--CGUaCGUgUGGAAGg -5'
27466 3' -53.5 NC_005869.1 + 25743 0.69 0.486969
Target:  5'- -gAGUgcuacugCCGCUGCAaccucUGCGCACCgcaCCg -3'
miRNA:   3'- cgUCGa------GGUGACGU-----ACGUGUGGaa-GG- -5'
27466 3' -53.5 NC_005869.1 + 25526 0.69 0.476197
Target:  5'- --uGCcagCCAgaGCAugaUGCAUGCCUUCCg -3'
miRNA:   3'- cguCGa--GGUgaCGU---ACGUGUGGAAGG- -5'
27466 3' -53.5 NC_005869.1 + 24254 0.69 0.465545
Target:  5'- --cGCaUCCGcCUGCA-GCGCGCCggCCg -3'
miRNA:   3'- cguCG-AGGU-GACGUaCGUGUGGaaGG- -5'
27466 3' -53.5 NC_005869.1 + 13665 0.69 0.455018
Target:  5'- aGCAGCgCCGCcGCAgggaGCGuCGCCU-CCg -3'
miRNA:   3'- -CGUCGaGGUGaCGUa---CGU-GUGGAaGG- -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.