miRNA display CGI


Results 1 - 20 of 64 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
23789 3' -56.8 NC_005261.1 + 14171 0.66 0.880809
Target:  5'- cGGcgCgCGUCUcgGGGCGCG-GGUCAGg -3'
miRNA:   3'- -CCa-G-GCAGAcgUCCGCGUaCCAGUCg -5'
23789 3' -56.8 NC_005261.1 + 75231 0.66 0.880809
Target:  5'- aGUCCa---GCGGGCGCAUGuacGUgGGCa -3'
miRNA:   3'- cCAGGcagaCGUCCGCGUAC---CAgUCG- -5'
23789 3' -56.8 NC_005261.1 + 60377 0.66 0.878686
Target:  5'- uGGUCuCGUUgGCGaggugcgccuccauGGCGCcgGGcCGGCc -3'
miRNA:   3'- -CCAG-GCAGaCGU--------------CCGCGuaCCaGUCG- -5'
23789 3' -56.8 NC_005261.1 + 82335 0.66 0.873655
Target:  5'- -cUCCGcguagcgCUGCcGGCGCAc-GUCGGCg -3'
miRNA:   3'- ccAGGCa------GACGuCCGCGUacCAGUCG- -5'
23789 3' -56.8 NC_005261.1 + 82045 0.66 0.873655
Target:  5'- uGGUgCGUCagcGCGGGCcacgucGCcgGGUCgacGGCg -3'
miRNA:   3'- -CCAgGCAGa--CGUCCG------CGuaCCAG---UCG- -5'
23789 3' -56.8 NC_005261.1 + 23492 0.66 0.873655
Target:  5'- gGGcCCGcCUggGCAGGCGCGggcccUGGg-AGCa -3'
miRNA:   3'- -CCaGGCaGA--CGUCCGCGU-----ACCagUCG- -5'
23789 3' -56.8 NC_005261.1 + 57714 0.66 0.866286
Target:  5'- cGUCCaUCUGCacgagguagAGGCGCc-GGUCcGCg -3'
miRNA:   3'- cCAGGcAGACG---------UCCGCGuaCCAGuCG- -5'
23789 3' -56.8 NC_005261.1 + 45091 0.66 0.866286
Target:  5'- cGUCCGUCacgcGCcuGCGCGUGG--AGCc -3'
miRNA:   3'- cCAGGCAGa---CGucCGCGUACCagUCG- -5'
23789 3' -56.8 NC_005261.1 + 2607 0.66 0.866286
Target:  5'- --gCCGUCggcgGCGGGgcCGCcgGG-CGGCa -3'
miRNA:   3'- ccaGGCAGa---CGUCC--GCGuaCCaGUCG- -5'
23789 3' -56.8 NC_005261.1 + 98085 0.66 0.858707
Target:  5'- uGUCCuuggagaaUCUGgGGGCGCGgcgGG-CGGCg -3'
miRNA:   3'- cCAGGc-------AGACgUCCGCGUa--CCaGUCG- -5'
23789 3' -56.8 NC_005261.1 + 108351 0.66 0.858707
Target:  5'- aGGgccgccgCCGUC-GCAGGCGCAUcccugcccGcGUCcGCg -3'
miRNA:   3'- -CCa------GGCAGaCGUCCGCGUA--------C-CAGuCG- -5'
23789 3' -56.8 NC_005261.1 + 99789 0.66 0.850924
Target:  5'- gGGUCCcaGUC-GCGGcGCGgAUGGcgaaCAGCg -3'
miRNA:   3'- -CCAGG--CAGaCGUC-CGCgUACCa---GUCG- -5'
23789 3' -56.8 NC_005261.1 + 54471 0.66 0.850924
Target:  5'- gGGUCUGgcaucCGGGCGUcgGG-CGGCa -3'
miRNA:   3'- -CCAGGCagac-GUCCGCGuaCCaGUCG- -5'
23789 3' -56.8 NC_005261.1 + 62682 0.66 0.850924
Target:  5'- cGUCCGccagCUGCAcGCGCcgGcG-CAGCg -3'
miRNA:   3'- cCAGGCa---GACGUcCGCGuaC-CaGUCG- -5'
23789 3' -56.8 NC_005261.1 + 72611 0.66 0.842942
Target:  5'- uGUaCCGggcggGCGGGCGCAgGGgCGGCu -3'
miRNA:   3'- cCA-GGCaga--CGUCCGCGUaCCaGUCG- -5'
23789 3' -56.8 NC_005261.1 + 47497 0.66 0.842942
Target:  5'- -cUCCGguagaaGCGGGCugucuuCGUGGUCAGCu -3'
miRNA:   3'- ccAGGCaga---CGUCCGc-----GUACCAGUCG- -5'
23789 3' -56.8 NC_005261.1 + 129623 0.66 0.842942
Target:  5'- gGGUCgGgcgccUUUGCAGGCGgCAacggUGG-CGGCg -3'
miRNA:   3'- -CCAGgC-----AGACGUCCGC-GU----ACCaGUCG- -5'
23789 3' -56.8 NC_005261.1 + 15019 0.66 0.842942
Target:  5'- aGGagUUGUCgGCGGGUGCcgGGggcgUAGCg -3'
miRNA:   3'- -CCa-GGCAGaCGUCCGCGuaCCa---GUCG- -5'
23789 3' -56.8 NC_005261.1 + 64180 0.66 0.842133
Target:  5'- uGGUCCGg--GCAGGCgaaaagcGCGUGcacCGGCg -3'
miRNA:   3'- -CCAGGCagaCGUCCG-------CGUACca-GUCG- -5'
23789 3' -56.8 NC_005261.1 + 85970 0.67 0.838061
Target:  5'- uGGUCCGUgauugcgcgcucgagCUGCgccgccgacgGGGCGuCGUGcGcCAGCa -3'
miRNA:   3'- -CCAGGCA---------------GACG----------UCCGC-GUAC-CaGUCG- -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.