miRNA display CGI


Results 1 - 20 of 57 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
11531 3' -55.7 NC_003085.1 + 5085 0.66 0.695094
Target:  5'- cGCGUcaagaagucggaGUuggaGGCGUuucUCGCGUCGCCGCg -3'
miRNA:   3'- -UGCA------------CGuag-CCGUA---GGUGCAGUGGCG- -5'
11531 3' -55.7 NC_003085.1 + 20290 0.66 0.695094
Target:  5'- gACGUacCGgaaGGCGUCCGCGUCGUgGCu -3'
miRNA:   3'- -UGCAc-GUag-CCGUAGGUGCAGUGgCG- -5'
11531 3' -55.7 NC_003085.1 + 12910 0.66 0.695094
Target:  5'- uGCGUGgCAUUGGCggCCaacaGCG-CAuCCGCc -3'
miRNA:   3'- -UGCAC-GUAGCCGuaGG----UGCaGU-GGCG- -5'
11531 3' -55.7 NC_003085.1 + 41931 0.66 0.684223
Target:  5'- cCGUGCccaCGGCAUggccCCAC-UUGCCGCc -3'
miRNA:   3'- uGCACGua-GCCGUA----GGUGcAGUGGCG- -5'
11531 3' -55.7 NC_003085.1 + 4809 0.66 0.673301
Target:  5'- gUGUGCAUCGGC--CCAUGUgCA-UGCa -3'
miRNA:   3'- uGCACGUAGCCGuaGGUGCA-GUgGCG- -5'
11531 3' -55.7 NC_003085.1 + 24707 0.66 0.673301
Target:  5'- gACGgcgGCAUCGGCGgcUUCGCGggUGCCa- -3'
miRNA:   3'- -UGCa--CGUAGCCGU--AGGUGCa-GUGGcg -5'
11531 3' -55.7 NC_003085.1 + 41953 0.66 0.673301
Target:  5'- uCGcUGCGUCagGGCua-CACGUCGgCGCa -3'
miRNA:   3'- uGC-ACGUAG--CCGuagGUGCAGUgGCG- -5'
11531 3' -55.7 NC_003085.1 + 36106 0.66 0.673301
Target:  5'- gACGgggGCAUaCGGCGUgcCCAUG--GCCGCc -3'
miRNA:   3'- -UGCa--CGUA-GCCGUA--GGUGCagUGGCG- -5'
11531 3' -55.7 NC_003085.1 + 6094 0.66 0.673301
Target:  5'- ---gGCG-CGGCGUCCggGCGUaCAuCCGCg -3'
miRNA:   3'- ugcaCGUaGCCGUAGG--UGCA-GU-GGCG- -5'
11531 3' -55.7 NC_003085.1 + 23810 0.66 0.673301
Target:  5'- gACGUGUccuUCGGCG-CCACGguggggGCCGg -3'
miRNA:   3'- -UGCACGu--AGCCGUaGGUGCag----UGGCg -5'
11531 3' -55.7 NC_003085.1 + 11266 0.66 0.673301
Target:  5'- gGCGUGCcuuccuUCcGCAggUCuCGCGUC-CCGCa -3'
miRNA:   3'- -UGCACGu-----AGcCGU--AG-GUGCAGuGGCG- -5'
11531 3' -55.7 NC_003085.1 + 3421 0.66 0.662341
Target:  5'- cACGgGCGUCGGgGagCGuCGUCugUGCg -3'
miRNA:   3'- -UGCaCGUAGCCgUagGU-GCAGugGCG- -5'
11531 3' -55.7 NC_003085.1 + 23225 0.66 0.662341
Target:  5'- gGC-UGCuccagaCGGCcgCCGCGcuucgCACCGCg -3'
miRNA:   3'- -UGcACGua----GCCGuaGGUGCa----GUGGCG- -5'
11531 3' -55.7 NC_003085.1 + 10443 0.66 0.662341
Target:  5'- -aGUGCggaGUCGGC-UCCGCGgCGCUuugGCg -3'
miRNA:   3'- ugCACG---UAGCCGuAGGUGCaGUGG---CG- -5'
11531 3' -55.7 NC_003085.1 + 12902 0.66 0.651352
Target:  5'- cCGUGCAaUGGCGaccccgCCACG--GCCGCc -3'
miRNA:   3'- uGCACGUaGCCGUa-----GGUGCagUGGCG- -5'
11531 3' -55.7 NC_003085.1 + 12095 0.66 0.651352
Target:  5'- cGCGcaGCAcCGGCAggugcgCCAgCGUCagGCCGCu -3'
miRNA:   3'- -UGCa-CGUaGCCGUa-----GGU-GCAG--UGGCG- -5'
11531 3' -55.7 NC_003085.1 + 39375 0.66 0.640346
Target:  5'- aACGaaUGCGUCGuaGUUgGCGagaCACCGCa -3'
miRNA:   3'- -UGC--ACGUAGCcgUAGgUGCa--GUGGCG- -5'
11531 3' -55.7 NC_003085.1 + 4269 0.67 0.629333
Target:  5'- cGCGU-CAgCGGCGUCCuGCGUCugCu- -3'
miRNA:   3'- -UGCAcGUaGCCGUAGG-UGCAGugGcg -5'
11531 3' -55.7 NC_003085.1 + 27098 0.67 0.618322
Target:  5'- gACGUcCGagGGCAucugggacguuUCCGCGUCGUCGCa -3'
miRNA:   3'- -UGCAcGUagCCGU-----------AGGUGCAGUGGCG- -5'
11531 3' -55.7 NC_003085.1 + 10318 0.67 0.618322
Target:  5'- aACGaaUGCGaugCGGCccccgCCACGUCGCCu- -3'
miRNA:   3'- -UGC--ACGUa--GCCGua---GGUGCAGUGGcg -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.