miRNA display CGI


Results 1 - 17 of 17 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
1344 3' -52.3 NC_001335.1 + 42119 0.66 0.860136
Target:  5'- uGUGuccGAUGuGUagAUCGGACgugaACCAGGUg -3'
miRNA:   3'- gCACu--CUACuCG--UAGUCUG----UGGUCCG- -5'
1344 3' -52.3 NC_001335.1 + 15522 0.66 0.842745
Target:  5'- aCGUcGuGGUGGGCAgCAG-UACCGGGg -3'
miRNA:   3'- -GCA-CuCUACUCGUaGUCuGUGGUCCg -5'
1344 3' -52.3 NC_001335.1 + 26429 0.66 0.84185
Target:  5'- aGUGGGcUGcGGCAUCGGaggaggcGCgACCGGGUa -3'
miRNA:   3'- gCACUCuAC-UCGUAGUC-------UG-UGGUCCG- -5'
1344 3' -52.3 NC_001335.1 + 41083 0.66 0.823482
Target:  5'- --cGAGAUGGGcCGUgAGACAggcucaugcgucgUCGGGCu -3'
miRNA:   3'- gcaCUCUACUC-GUAgUCUGU-------------GGUCCG- -5'
1344 3' -52.3 NC_001335.1 + 11906 0.67 0.795365
Target:  5'- gGUGAGGUcGGCGUUGGA-GCCGGuGCc -3'
miRNA:   3'- gCACUCUAcUCGUAGUCUgUGGUC-CG- -5'
1344 3' -52.3 NC_001335.1 + 7437 0.68 0.754167
Target:  5'- -aUGGGAcGAGUAcCAGAagguCCAGGCa -3'
miRNA:   3'- gcACUCUaCUCGUaGUCUgu--GGUCCG- -5'
1344 3' -52.3 NC_001335.1 + 14401 0.68 0.754167
Target:  5'- gGUuGGAcGAGCGUCGGccACACCagccgAGGCa -3'
miRNA:   3'- gCAcUCUaCUCGUAGUC--UGUGG-----UCCG- -5'
1344 3' -52.3 NC_001335.1 + 42878 0.68 0.737057
Target:  5'- uCGUGccugccuuagagggaAGGUGAGUAUCGGugGCgucaAGGUg -3'
miRNA:   3'- -GCAC---------------UCUACUCGUAGUCugUGg---UCCG- -5'
1344 3' -52.3 NC_001335.1 + 13105 0.68 0.732733
Target:  5'- gGUGcucuGAUGAGCcUCcucGACACCGGuGCc -3'
miRNA:   3'- gCACu---CUACUCGuAGu--CUGUGGUC-CG- -5'
1344 3' -52.3 NC_001335.1 + 10275 0.68 0.721849
Target:  5'- uCGUGcAGGgcUGGGCGagGGucgcCACCGGGCg -3'
miRNA:   3'- -GCAC-UCU--ACUCGUagUCu---GUGGUCCG- -5'
1344 3' -52.3 NC_001335.1 + 20910 0.68 0.721849
Target:  5'- aCG-GAGc--GGCGUCAGACACCuugaGGGUg -3'
miRNA:   3'- -GCaCUCuacUCGUAGUCUGUGG----UCCG- -5'
1344 3' -52.3 NC_001335.1 + 18345 0.69 0.707563
Target:  5'- gGUGucaauGGUGAGCGUuucaacuugacgacCGGugACCAGGg -3'
miRNA:   3'- gCACu----CUACUCGUA--------------GUCugUGGUCCg -5'
1344 3' -52.3 NC_001335.1 + 8557 0.69 0.685336
Target:  5'- --aGAGAUGcAGCAacugcuggcucacgUCGGAUACCccAGGCu -3'
miRNA:   3'- gcaCUCUAC-UCGU--------------AGUCUGUGG--UCCG- -5'
1344 3' -52.3 NC_001335.1 + 20660 0.7 0.621125
Target:  5'- gCGUGcGAUGGGCAUCucgcucccGAUcuCCGGGCu -3'
miRNA:   3'- -GCACuCUACUCGUAGu-------CUGu-GGUCCG- -5'
1344 3' -52.3 NC_001335.1 + 25983 0.72 0.510258
Target:  5'- cCGUGGcGAcGAGCGUCAGGCcgucgaccACCAagGGCa -3'
miRNA:   3'- -GCACU-CUaCUCGUAGUCUG--------UGGU--CCG- -5'
1344 3' -52.3 NC_001335.1 + 29656 0.73 0.437727
Target:  5'- --gGAGAUGGGCGUCaAGAuCACCGGucGCa -3'
miRNA:   3'- gcaCUCUACUCGUAG-UCU-GUGGUC--CG- -5'
1344 3' -52.3 NC_001335.1 + 10396 1 0.007781
Target:  5'- cCGUGAGAUGAGCAU-AGACACCAGGCg -3'
miRNA:   3'- -GCACUCUACUCGUAgUCUGUGGUCCG- -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.