miRNA display CGI


Results 1 - 15 of 15 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
1069 3' -55.5 NC_000929.1 + 1702 0.69 0.374901
Target:  5'- -cCGCAGGCAAccauuuuUCAGCaagUCUGCGCu -3'
miRNA:   3'- auGUGUCCGUU-------AGUCGcggAGACGCG- -5'
1069 3' -55.5 NC_000929.1 + 5370 0.69 0.348853
Target:  5'- -uCACGGGCu-UCAGgGUCUgaUGCGCa -3'
miRNA:   3'- auGUGUCCGuuAGUCgCGGAg-ACGCG- -5'
1069 3' -55.5 NC_000929.1 + 11035 0.66 0.511952
Target:  5'- gGCACAGGCuggaCAGCacccGCCacgauaaccagacgCUGCGCc -3'
miRNA:   3'- aUGUGUCCGuua-GUCG----CGGa-------------GACGCG- -5'
1069 3' -55.5 NC_000929.1 + 13341 0.66 0.540791
Target:  5'- gAUACAGGCGcuGUCaAGcCGCCcgucuaacCUGCGUg -3'
miRNA:   3'- aUGUGUCCGU--UAG-UC-GCGGa-------GACGCG- -5'
1069 3' -55.5 NC_000929.1 + 14875 0.66 0.50757
Target:  5'- gUGCGCuGGC-AUCAcGUGCCggagcgaUGCGCc -3'
miRNA:   3'- -AUGUGuCCGuUAGU-CGCGGag-----ACGCG- -5'
1069 3' -55.5 NC_000929.1 + 14995 0.7 0.315088
Target:  5'- cUGCAUcaucGCGAUcCGGCGCUguUCUGCGCg -3'
miRNA:   3'- -AUGUGuc--CGUUA-GUCGCGG--AGACGCG- -5'
1069 3' -55.5 NC_000929.1 + 15124 0.66 0.506477
Target:  5'- cGCAcCGGGUAuGUCGGCaccaaugGCCUUgUGCGCa -3'
miRNA:   3'- aUGU-GUCCGU-UAGUCG-------CGGAG-ACGCG- -5'
1069 3' -55.5 NC_000929.1 + 16227 0.69 0.366677
Target:  5'- gGCGCGGGCGu---GCGCgUCUGC-Ca -3'
miRNA:   3'- aUGUGUCCGUuaguCGCGgAGACGcG- -5'
1069 3' -55.5 NC_000929.1 + 16521 0.67 0.443982
Target:  5'- -gUACGGGUAcaaAUCGGCGgUauucaucaUCUGCGCa -3'
miRNA:   3'- auGUGUCCGU---UAGUCGCgG--------AGACGCG- -5'
1069 3' -55.5 NC_000929.1 + 18717 0.66 0.518553
Target:  5'- aGCGugucCAGcGCGGUCAGUGCCgCUGuUGCc -3'
miRNA:   3'- aUGU----GUC-CGUUAGUCGCGGaGAC-GCG- -5'
1069 3' -55.5 NC_000929.1 + 18802 0.7 0.299936
Target:  5'- gGCACAGGCGAcugcacaaagcgccaCAGCcaGCCUgaGCGCc -3'
miRNA:   3'- aUGUGUCCGUUa--------------GUCG--CGGAgaCGCG- -5'
1069 3' -55.5 NC_000929.1 + 28432 0.74 0.183065
Target:  5'- aUGCACAGGCcc---GCGCC-CUGCGUg -3'
miRNA:   3'- -AUGUGUCCGuuaguCGCGGaGACGCG- -5'
1069 3' -55.5 NC_000929.1 + 29053 1.09 0.000434
Target:  5'- cUACACAGGCAAUCAGCGCCUCUGCGCc -3'
miRNA:   3'- -AUGUGUCCGUUAGUCGCGGAGACGCG- -5'
1069 3' -55.5 NC_000929.1 + 30977 0.73 0.204834
Target:  5'- gGCGCAGGCcAUCAGCgacgugauuGCCaCUGCGg -3'
miRNA:   3'- aUGUGUCCGuUAGUCG---------CGGaGACGCg -5'
1069 3' -55.5 NC_000929.1 + 31046 0.71 0.269175
Target:  5'- cGCAguGGCAAUCAcGuCGCUgauggcCUGCGCc -3'
miRNA:   3'- aUGUguCCGUUAGU-C-GCGGa-----GACGCG- -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.