miRNA display CGI


Results 1 - 17 of 17 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
23362 3' -57.7 NC_005259.1 + 45780 0.66 0.653264
Target:  5'- -cGGGUGccagcaccgcguUGACggUGUCCUGCUUGGg -3'
miRNA:   3'- aaCCCGC------------ACUGgaGCAGGAUGAGCCg -5'
23362 3' -57.7 NC_005259.1 + 21961 0.66 0.653264
Target:  5'- --aGGCGUGACCcgcgugggugUCGUUCUccccAC-CGGCa -3'
miRNA:   3'- aacCCGCACUGG----------AGCAGGA----UGaGCCG- -5'
23362 3' -57.7 NC_005259.1 + 58795 0.66 0.642574
Target:  5'- -cGaGGCgGUGauuGCCUCGgcgggcucgCgCUGCUCGGCa -3'
miRNA:   3'- aaC-CCG-CAC---UGGAGCa--------G-GAUGAGCCG- -5'
23362 3' -57.7 NC_005259.1 + 31879 0.67 0.599815
Target:  5'- -cGGuCGUGACCUCG-CCggucucaagGCcCGGCg -3'
miRNA:   3'- aaCCcGCACUGGAGCaGGa--------UGaGCCG- -5'
23362 3' -57.7 NC_005259.1 + 67980 0.67 0.598749
Target:  5'- -aGcGGCGUGGCCaccgccgcgagcgUCGacuugcccUCCUGCggCGGCa -3'
miRNA:   3'- aaC-CCGCACUGG-------------AGC--------AGGAUGa-GCCG- -5'
23362 3' -57.7 NC_005259.1 + 50287 0.67 0.589169
Target:  5'- -cGGGaacguCGUGcacgcucuGCCacUCGUCgUACUCGGCa -3'
miRNA:   3'- aaCCC-----GCAC--------UGG--AGCAGgAUGAGCCG- -5'
23362 3' -57.7 NC_005259.1 + 42755 0.67 0.589169
Target:  5'- --aGGCGgu-UCUCGaUCUGCUCGGCg -3'
miRNA:   3'- aacCCGCacuGGAGCaGGAUGAGCCG- -5'
23362 3' -57.7 NC_005259.1 + 51434 0.67 0.564825
Target:  5'- cUUGGGCGggccacggGGCCUCGcgCCgAuagagcuuguugccCUCGGCg -3'
miRNA:   3'- -AACCCGCa-------CUGGAGCa-GGaU--------------GAGCCG- -5'
23362 3' -57.7 NC_005259.1 + 59404 0.68 0.536601
Target:  5'- -cGaGCGUGACCUCGcgCaugGCgUCGGCg -3'
miRNA:   3'- aaCcCGCACUGGAGCa-Gga-UG-AGCCG- -5'
23362 3' -57.7 NC_005259.1 + 61052 0.68 0.52627
Target:  5'- -cGGGCGgcucACCUUGUgCCggGCaUCGGCa -3'
miRNA:   3'- aaCCCGCac--UGGAGCA-GGa-UG-AGCCG- -5'
23362 3' -57.7 NC_005259.1 + 41213 0.68 0.516014
Target:  5'- --cGGUGUgGAUCgucaCGcCCUGCUCGGCg -3'
miRNA:   3'- aacCCGCA-CUGGa---GCaGGAUGAGCCG- -5'
23362 3' -57.7 NC_005259.1 + 55713 0.68 0.516014
Target:  5'- aUGGccGCGaGcACCUCGcCCUugUUGGCa -3'
miRNA:   3'- aACC--CGCaC-UGGAGCaGGAugAGCCG- -5'
23362 3' -57.7 NC_005259.1 + 18963 0.68 0.495752
Target:  5'- aUGGG-GUGACCUCG-CCgcguacaucGCcCGGCa -3'
miRNA:   3'- aACCCgCACUGGAGCaGGa--------UGaGCCG- -5'
23362 3' -57.7 NC_005259.1 + 49649 0.71 0.333433
Target:  5'- --cGGCGauggcGGCCUCGauacgcgCCUGCUCGGCc -3'
miRNA:   3'- aacCCGCa----CUGGAGCa------GGAUGAGCCG- -5'
23362 3' -57.7 NC_005259.1 + 58219 0.73 0.281718
Target:  5'- -aGGGUcaGUGGCCUCGagCUcggGCUCGGUg -3'
miRNA:   3'- aaCCCG--CACUGGAGCagGA---UGAGCCG- -5'
23362 3' -57.7 NC_005259.1 + 60128 0.74 0.224837
Target:  5'- --cGGCG--GCCUCGUCCUGCgCGGCc -3'
miRNA:   3'- aacCCGCacUGGAGCAGGAUGaGCCG- -5'
23362 3' -57.7 NC_005259.1 + 29456 0.74 0.242631
Target:  5'- ---aGCGUGACCUUG-CCgcccgGCUCGGCa -3'
miRNA:   3'- aaccCGCACUGGAGCaGGa----UGAGCCG- -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.