miRNA display CGI


Results 1 - 11 of 11 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
18641 3' -53.2 NC_004682.1 + 18090 0.66 0.798651
Target:  5'- cGAAGgUGUCGGaauggguggccaGCUUCGCGCaggGCg -3'
miRNA:   3'- uCUUCgACAGCU------------UGGAGCGCGagaUG- -5'
18641 3' -53.2 NC_004682.1 + 22683 0.66 0.798651
Target:  5'- cAGGAGaaCUGaaUGcACCUUGUGCUCUACg -3'
miRNA:   3'- -UCUUC--GACa-GCuUGGAGCGCGAGAUG- -5'
18641 3' -53.2 NC_004682.1 + 18465 0.66 0.768083
Target:  5'- aGGAAGUguucggcgaUGccgCGAAUCUCGCGUUCaACu -3'
miRNA:   3'- -UCUUCG---------ACa--GCUUGGAGCGCGAGaUG- -5'
18641 3' -53.2 NC_004682.1 + 14017 0.67 0.746944
Target:  5'- cGAGGCUGaCG-ACCUgGagcagaCGCUCUACc -3'
miRNA:   3'- uCUUCGACaGCuUGGAgC------GCGAGAUG- -5'
18641 3' -53.2 NC_004682.1 + 14337 0.67 0.703287
Target:  5'- gAGAAGCUcuaCGAagacGCuCUCgaaGCGCUCUACg -3'
miRNA:   3'- -UCUUCGAca-GCU----UG-GAG---CGCGAGAUG- -5'
18641 3' -53.2 NC_004682.1 + 15777 0.68 0.647151
Target:  5'- aAGGAGCUaccgGUCGG--CUCGCgGUUCUACg -3'
miRNA:   3'- -UCUUCGA----CAGCUugGAGCG-CGAGAUG- -5'
18641 3' -53.2 NC_004682.1 + 45483 0.69 0.623382
Target:  5'- ---cGCUGUCGGcguugauGCCUCcGUGCUCaGCg -3'
miRNA:   3'- ucuuCGACAGCU-------UGGAG-CGCGAGaUG- -5'
18641 3' -53.2 NC_004682.1 + 39201 0.69 0.60981
Target:  5'- -cAGGUaGUCGAugaaccgcuggaacGCCUCGCGCUCg-- -3'
miRNA:   3'- ucUUCGaCAGCU--------------UGGAGCGCGAGaug -5'
18641 3' -53.2 NC_004682.1 + 15329 0.7 0.52411
Target:  5'- uGGAGCUGggaggCGAcgacGCCgUCGUGCUCcGCa -3'
miRNA:   3'- uCUUCGACa----GCU----UGG-AGCGCGAGaUG- -5'
18641 3' -53.2 NC_004682.1 + 48889 0.71 0.460641
Target:  5'- cGGAacAGCU-UCGGGCCUUGCGCUUgucGCa -3'
miRNA:   3'- -UCU--UCGAcAGCUUGGAGCGCGAGa--UG- -5'
18641 3' -53.2 NC_004682.1 + 2106 1.1 0.001195
Target:  5'- cAGAAGCUGUCGAACCUCGCGCUCUACu -3'
miRNA:   3'- -UCUUCGACAGCUUGGAGCGCGAGAUG- -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.