miRNA display CGI


Results 1 - 20 of 23 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
24822 3' -52.3 NC_005284.1 + 43535 0.72 0.467797
Target:  5'- cGAUGCCGAUaGCGcgCGCAAGGUccggacgggUUUCg -3'
miRNA:   3'- -UUACGGCUGaCGUa-GCGUUCCG---------AAAG- -5'
24822 3' -52.3 NC_005284.1 + 41050 0.66 0.821307
Target:  5'- --cGCCGAC-GUuucUCGCGGGGCg--- -3'
miRNA:   3'- uuaCGGCUGaCGu--AGCGUUCCGaaag -5'
24822 3' -52.3 NC_005284.1 + 10806 0.66 0.811541
Target:  5'- --cGCCGGCggaaugGCAUCG-GAGGCg--- -3'
miRNA:   3'- uuaCGGCUGa-----CGUAGCgUUCCGaaag -5'
24822 3' -52.3 NC_005284.1 + 31619 0.66 0.801567
Target:  5'- gGGUGCgGGCgGCGUCG-AGGGCgcaUUCc -3'
miRNA:   3'- -UUACGgCUGaCGUAGCgUUCCGa--AAG- -5'
24822 3' -52.3 NC_005284.1 + 24344 0.68 0.70456
Target:  5'- --cGCUuAUcGCGUCGCAAGGCUUc- -3'
miRNA:   3'- uuaCGGcUGaCGUAGCGUUCCGAAag -5'
24822 3' -52.3 NC_005284.1 + 49050 0.68 0.70456
Target:  5'- -cUGCCGACUgGCAcaagagcgCGCAGGGUg--- -3'
miRNA:   3'- uuACGGCUGA-CGUa-------GCGUUCCGaaag -5'
24822 3' -52.3 NC_005284.1 + 35167 0.68 0.70456
Target:  5'- uAUGCCGugUGCgAUCGCGGcGCa--- -3'
miRNA:   3'- uUACGGCugACG-UAGCGUUcCGaaag -5'
24822 3' -52.3 NC_005284.1 + 40770 0.68 0.681809
Target:  5'- --gGCCGACUGUGUCG--AGGCa--- -3'
miRNA:   3'- uuaCGGCUGACGUAGCguUCCGaaag -5'
24822 3' -52.3 NC_005284.1 + 21558 0.69 0.658848
Target:  5'- -uUGCCGACgagcagGCcgCGC-GGGCgUUCg -3'
miRNA:   3'- uuACGGCUGa-----CGuaGCGuUCCGaAAG- -5'
24822 3' -52.3 NC_005284.1 + 50052 0.69 0.623077
Target:  5'- --cGCCGACUGaGUCGCcgcaagaGAGGCUc-- -3'
miRNA:   3'- uuaCGGCUGACgUAGCG-------UUCCGAaag -5'
24822 3' -52.3 NC_005284.1 + 351 0.69 0.612693
Target:  5'- --cGUCGACaGC-UCGCAAGGCagUCc -3'
miRNA:   3'- uuaCGGCUGaCGuAGCGUUCCGaaAG- -5'
24822 3' -52.3 NC_005284.1 + 53783 0.69 0.601173
Target:  5'- uGAUGCCGGCUGCugcgGCGAGcGCa--- -3'
miRNA:   3'- -UUACGGCUGACGuag-CGUUC-CGaaag -5'
24822 3' -52.3 NC_005284.1 + 53498 0.7 0.566828
Target:  5'- --cGCCGGUUcGCcgCGCGGGGCUUUUu -3'
miRNA:   3'- uuaCGGCUGA-CGuaGCGUUCCGAAAG- -5'
24822 3' -52.3 NC_005284.1 + 48917 0.68 0.715826
Target:  5'- --aGCCGAUUGCGUUGC--GGCg--- -3'
miRNA:   3'- uuaCGGCUGACGUAGCGuuCCGaaag -5'
24822 3' -52.3 NC_005284.1 + 16216 0.67 0.727001
Target:  5'- --gGCCGAacgGCcgucUCGCucGGGCUUUCg -3'
miRNA:   3'- uuaCGGCUga-CGu---AGCGu-UCCGAAAG- -5'
24822 3' -52.3 NC_005284.1 + 17713 0.67 0.759847
Target:  5'- --cGCCGGC-GCGUCGau-GGCggUCg -3'
miRNA:   3'- uuaCGGCUGaCGUAGCguuCCGaaAG- -5'
24822 3' -52.3 NC_005284.1 + 50168 0.66 0.791399
Target:  5'- -cUGCCGAC--CGUCGCA-GGCacgUUCa -3'
miRNA:   3'- uuACGGCUGacGUAGCGUuCCGa--AAG- -5'
24822 3' -52.3 NC_005284.1 + 44663 0.66 0.801567
Target:  5'- --cGCCGuCUGCGccgUCGCcgcGCUUUCg -3'
miRNA:   3'- uuaCGGCuGACGU---AGCGuucCGAAAG- -5'
24822 3' -52.3 NC_005284.1 + 44370 0.66 0.821307
Target:  5'- uAUGCCGACUGCG-CGuCAucGGCc--- -3'
miRNA:   3'- uUACGGCUGACGUaGC-GUu-CCGaaag -5'
24822 3' -52.3 NC_005284.1 + 45100 1.08 0.00157
Target:  5'- cAAUGCCGACUGCAUCGCAAGGCUUUCg -3'
miRNA:   3'- -UUACGGCUGACGUAGCGUUCCGAAAG- -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.