miRNA display CGI


Results 1 - 20 of 21 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
28150 3' -52.7 NC_005887.1 + 2221 0.66 0.751291
Target:  5'- gGGCGGcUGGCGCAUcCGGUCGGaAGuCGUc -3'
miRNA:   3'- -UUGCU-AUUGCGUA-GUCGGCCaUC-GCA- -5'
28150 3' -52.7 NC_005887.1 + 18728 0.66 0.740341
Target:  5'- cGACGAgacuGCGCGcagCGGCUGGaacAGCGUc -3'
miRNA:   3'- -UUGCUau--UGCGUa--GUCGGCCa--UCGCA- -5'
28150 3' -52.7 NC_005887.1 + 24525 0.66 0.737032
Target:  5'- cGACGGUAAgcaucacgcgcggcCGCAccuUCGGCCGGgcGCc- -3'
miRNA:   3'- -UUGCUAUU--------------GCGU---AGUCGGCCauCGca -5'
28150 3' -52.7 NC_005887.1 + 34366 0.66 0.728158
Target:  5'- aGACGAgcgccccGCGUAUCagagugcGGCCGGgcGCGa -3'
miRNA:   3'- -UUGCUau-----UGCGUAG-------UCGGCCauCGCa -5'
28150 3' -52.7 NC_005887.1 + 13951 0.67 0.706822
Target:  5'- -cCGAc-GCGCAcgAGCCGGUAGCu- -3'
miRNA:   3'- uuGCUauUGCGUagUCGGCCAUCGca -5'
28150 3' -52.7 NC_005887.1 + 25730 0.67 0.695469
Target:  5'- cGACGAUggcGACGCGcugCGGCUGGcGGUGa -3'
miRNA:   3'- -UUGCUA---UUGCGUa--GUCGGCCaUCGCa -5'
28150 3' -52.7 NC_005887.1 + 16020 0.67 0.68405
Target:  5'- -cCGGUGACGUAUCgggagccgcaggAGCCGGUAuuGCa- -3'
miRNA:   3'- uuGCUAUUGCGUAG------------UCGGCCAU--CGca -5'
28150 3' -52.7 NC_005887.1 + 23524 0.67 0.661058
Target:  5'- uGACGAacGCGCggGUgAGCUGGcAGCGUa -3'
miRNA:   3'- -UUGCUauUGCG--UAgUCGGCCaUCGCA- -5'
28150 3' -52.7 NC_005887.1 + 12660 0.68 0.626377
Target:  5'- cACGccgAGCGUcgCGGCCGGgucGGCGg -3'
miRNA:   3'- uUGCua-UUGCGuaGUCGGCCa--UCGCa -5'
28150 3' -52.7 NC_005887.1 + 25021 0.68 0.603265
Target:  5'- cGGCGGc--CGCcggcCAGCCGGUAGCGc -3'
miRNA:   3'- -UUGCUauuGCGua--GUCGGCCAUCGCa -5'
28150 3' -52.7 NC_005887.1 + 13373 0.69 0.589444
Target:  5'- cGGCGAUGGCGCucgcgcugaaGGCCGGcgcGGCGg -3'
miRNA:   3'- -UUGCUAUUGCGuag-------UCGGCCa--UCGCa -5'
28150 3' -52.7 NC_005887.1 + 23974 0.69 0.580261
Target:  5'- cGCGAUAcgacCGCGacUCAGCCuGGUGGCu- -3'
miRNA:   3'- uUGCUAUu---GCGU--AGUCGG-CCAUCGca -5'
28150 3' -52.7 NC_005887.1 + 21327 0.69 0.568826
Target:  5'- cGCGccGAcCGCAUCGGCCGGUA-CGa -3'
miRNA:   3'- uUGCuaUU-GCGUAGUCGGCCAUcGCa -5'
28150 3' -52.7 NC_005887.1 + 11373 0.69 0.568826
Target:  5'- cAGCGcgGGCGuCAgcgCAGCCGG-AGCGc -3'
miRNA:   3'- -UUGCuaUUGC-GUa--GUCGGCCaUCGCa -5'
28150 3' -52.7 NC_005887.1 + 39913 0.72 0.41819
Target:  5'- uACGGUGcGCGCAgaUCgAGCCGGgcGCGUc -3'
miRNA:   3'- uUGCUAU-UGCGU--AG-UCGGCCauCGCA- -5'
28150 3' -52.7 NC_005887.1 + 9821 0.74 0.302215
Target:  5'- cGCGAacGCGUcgCAGCCGGUcAGCGc -3'
miRNA:   3'- uUGCUauUGCGuaGUCGGCCA-UCGCa -5'
28150 3' -52.7 NC_005887.1 + 22667 0.75 0.264702
Target:  5'- -uUGAUAuUGCAUCGGCCGGUGGgCGc -3'
miRNA:   3'- uuGCUAUuGCGUAGUCGGCCAUC-GCa -5'
28150 3' -52.7 NC_005887.1 + 25505 0.75 0.264702
Target:  5'- gGACGAUGGCGC---GGCgGGUGGCGg -3'
miRNA:   3'- -UUGCUAUUGCGuagUCGgCCAUCGCa -5'
28150 3' -52.7 NC_005887.1 + 11087 0.77 0.18954
Target:  5'- aAACGAUuccgcguGGCGCAUCGGCUGGUGcGCGc -3'
miRNA:   3'- -UUGCUA-------UUGCGUAGUCGGCCAU-CGCa -5'
28150 3' -52.7 NC_005887.1 + 26837 0.81 0.106301
Target:  5'- cGCGAgcgGGCGCGUCuGCCGGUAGCc- -3'
miRNA:   3'- uUGCUa--UUGCGUAGuCGGCCAUCGca -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.