miRNA display CGI


Results 1 - 20 of 25 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
18082 5' -53.9 NC_004680.1 + 11724 1.09 0.001174
Target:  5'- uAUAGGCCGAAAUGGCCUGCAACUGCCc -3'
miRNA:   3'- -UAUCCGGCUUUACCGGACGUUGACGG- -5'
18082 5' -53.9 NC_004680.1 + 21699 0.74 0.303367
Target:  5'- --cGGCCGAGAacGCCUGCAGC-GUCa -3'
miRNA:   3'- uauCCGGCUUUacCGGACGUUGaCGG- -5'
18082 5' -53.9 NC_004680.1 + 55132 0.72 0.403904
Target:  5'- gGUGGGUCGAGGUGGCgUgacacagagaucagGCGGCgaGCCa -3'
miRNA:   3'- -UAUCCGGCUUUACCGgA--------------CGUUGa-CGG- -5'
18082 5' -53.9 NC_004680.1 + 21560 0.72 0.406745
Target:  5'- -cGGGCCGG--UGGCCUcaucuggcgaGCAAC-GCCg -3'
miRNA:   3'- uaUCCGGCUuuACCGGA----------CGUUGaCGG- -5'
18082 5' -53.9 NC_004680.1 + 10004 0.71 0.476401
Target:  5'- -gGGGaCCGGucgGGCCgGCAucgacgucGCUGCCg -3'
miRNA:   3'- uaUCC-GGCUuuaCCGGaCGU--------UGACGG- -5'
18082 5' -53.9 NC_004680.1 + 12972 0.69 0.55148
Target:  5'- uUGGGCUGGAccUGGCCUuggGCGGCgGCUu -3'
miRNA:   3'- uAUCCGGCUUu-ACCGGA---CGUUGaCGG- -5'
18082 5' -53.9 NC_004680.1 + 14920 0.69 0.57364
Target:  5'- -aGGGCCGAuu--GCCaUGCGGCUGUUu -3'
miRNA:   3'- uaUCCGGCUuuacCGG-ACGUUGACGG- -5'
18082 5' -53.9 NC_004680.1 + 37863 0.69 0.584799
Target:  5'- uGUGGaGaUCGAAGUGGUCaccgGCAugACUGCCg -3'
miRNA:   3'- -UAUC-C-GGCUUUACCGGa---CGU--UGACGG- -5'
18082 5' -53.9 NC_004680.1 + 11105 0.69 0.607234
Target:  5'- -gGGGCCGggG-GGCCgGCug--GCCc -3'
miRNA:   3'- uaUCCGGCuuUaCCGGaCGuugaCGG- -5'
18082 5' -53.9 NC_004680.1 + 51940 0.68 0.61849
Target:  5'- -aGGGCUGAAAUGaCCUcugGCGugUGCg -3'
miRNA:   3'- uaUCCGGCUUUACcGGA---CGUugACGg -5'
18082 5' -53.9 NC_004680.1 + 58439 0.68 0.663533
Target:  5'- -aAGGUCGGugugGAUGGCUgUGCcGACUGCg -3'
miRNA:   3'- uaUCCGGCU----UUACCGG-ACG-UUGACGg -5'
18082 5' -53.9 NC_004680.1 + 11163 0.67 0.674745
Target:  5'- -gGGGCCGccaccaaGGCCgcccgGCAGCaggaUGCCa -3'
miRNA:   3'- uaUCCGGCuuua---CCGGa----CGUUG----ACGG- -5'
18082 5' -53.9 NC_004680.1 + 45243 0.67 0.685914
Target:  5'- ---cGCCGAGAccacggGGCCUGCGAUggugUGCa -3'
miRNA:   3'- uaucCGGCUUUa-----CCGGACGUUG----ACGg -5'
18082 5' -53.9 NC_004680.1 + 22513 0.67 0.716864
Target:  5'- ---cGUCGAAGUGGCUUGCugcgacaugguuACUGCg -3'
miRNA:   3'- uaucCGGCUUUACCGGACGu-----------UGACGg -5'
18082 5' -53.9 NC_004680.1 + 25906 0.67 0.719051
Target:  5'- --uGGCCGAAcuggagcgGGCCaacGCAACUauccGCCg -3'
miRNA:   3'- uauCCGGCUUua------CCGGa--CGUUGA----CGG- -5'
18082 5' -53.9 NC_004680.1 + 42885 0.67 0.719051
Target:  5'- -cAGGUCGAuGAUGGUCaUGCGAUaGCUc -3'
miRNA:   3'- uaUCCGGCU-UUACCGG-ACGUUGaCGG- -5'
18082 5' -53.9 NC_004680.1 + 58532 0.66 0.729932
Target:  5'- uGUAGGCgaUGguGUGGCCUugGUGGCgUGCCc -3'
miRNA:   3'- -UAUCCG--GCuuUACCGGA--CGUUG-ACGG- -5'
18082 5' -53.9 NC_004680.1 + 37828 0.66 0.729932
Target:  5'- -aAGGCCGAuAUGGagCUGUGGg-GCCg -3'
miRNA:   3'- uaUCCGGCUuUACCg-GACGUUgaCGG- -5'
18082 5' -53.9 NC_004680.1 + 6046 0.66 0.740711
Target:  5'- -cAGGUCGucAAUGGgCgcgUGUGGCUGCCu -3'
miRNA:   3'- uaUCCGGCu-UUACCgG---ACGUUGACGG- -5'
18082 5' -53.9 NC_004680.1 + 20747 0.66 0.740711
Target:  5'- uUGGccGCCGAucgGGCCUGUuccGCcGCCa -3'
miRNA:   3'- uAUC--CGGCUuuaCCGGACGu--UGaCGG- -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.