miRNA display CGI


Results 1 - 20 of 66 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
4000 5' -55.5 NC_001650.1 + 36629 0.66 0.939428
Target:  5'- -uGCUCACGGACGggcagcagaucaGGGUcuucuccugccugcuGGAcguGGCCGGg -3'
miRNA:   3'- uuCGAGUGCCUGU------------UUCA---------------CCU---CCGGCU- -5'
4000 5' -55.5 NC_001650.1 + 31372 0.66 0.937513
Target:  5'- gAAGCUgacCAgGGACGGGcucaGGAGGCUGAc -3'
miRNA:   3'- -UUCGA---GUgCCUGUUUca--CCUCCGGCU- -5'
4000 5' -55.5 NC_001650.1 + 128541 0.66 0.937513
Target:  5'- cAGCUCACGuACA---UGGGGGgCGAg -3'
miRNA:   3'- uUCGAGUGCcUGUuucACCUCCgGCU- -5'
4000 5' -55.5 NC_001650.1 + 129457 0.66 0.937513
Target:  5'- gGAGUUCGCGGcCAAgaAGcUGGAGGagCGGg -3'
miRNA:   3'- -UUCGAGUGCCuGUU--UC-ACCUCCg-GCU- -5'
4000 5' -55.5 NC_001650.1 + 137788 0.66 0.932047
Target:  5'- aGAGUUUcggggagagGCGGGCGGGGUgagauggagcggaGGGGGCCGc -3'
miRNA:   3'- -UUCGAG---------UGCCUGUUUCA-------------CCUCCGGCu -5'
4000 5' -55.5 NC_001650.1 + 32270 0.66 0.92736
Target:  5'- -cGCaaccCACaGACcaGAAGUGGuGGCCGAg -3'
miRNA:   3'- uuCGa---GUGcCUG--UUUCACCuCCGGCU- -5'
4000 5' -55.5 NC_001650.1 + 135872 0.66 0.921922
Target:  5'- aAAGCUCAggucgUGGuCGGAGagGGGGGCCu- -3'
miRNA:   3'- -UUCGAGU-----GCCuGUUUCa-CCUCCGGcu -5'
4000 5' -55.5 NC_001650.1 + 36711 0.66 0.921922
Target:  5'- cAGGCaCGCGGACGcgGAGggcuaccaGGGGGCCa- -3'
miRNA:   3'- -UUCGaGUGCCUGU--UUCa-------CCUCCGGcu -5'
4000 5' -55.5 NC_001650.1 + 130409 0.66 0.921922
Target:  5'- aGGGCaucgUCAgGGACAAgcagauAGUGGAGuCCGAc -3'
miRNA:   3'- -UUCG----AGUgCCUGUU------UCACCUCcGGCU- -5'
4000 5' -55.5 NC_001650.1 + 132391 0.66 0.918544
Target:  5'- cGAGCUCuuugacggccuggcCGGGCGcgaggAGGUGGAGGUCu- -3'
miRNA:   3'- -UUCGAGu-------------GCCUGU-----UUCACCUCCGGcu -5'
4000 5' -55.5 NC_001650.1 + 40137 0.66 0.916244
Target:  5'- aAAG-UCAgGGugAccGAGUGGAGGUCGu -3'
miRNA:   3'- -UUCgAGUgCCugU--UUCACCUCCGGCu -5'
4000 5' -55.5 NC_001650.1 + 92005 0.66 0.916244
Target:  5'- gGGGUcuaUCGCGGGCAAAggauaaccGUGGAGGUgGu -3'
miRNA:   3'- -UUCG---AGUGCCUGUUU--------CACCUCCGgCu -5'
4000 5' -55.5 NC_001650.1 + 94823 0.66 0.916244
Target:  5'- cGAGCUCagcagggaccuGCGcGACAAgaugcccguGGUGGuGGUCGAg -3'
miRNA:   3'- -UUCGAG-----------UGC-CUGUU---------UCACCuCCGGCU- -5'
4000 5' -55.5 NC_001650.1 + 170705 0.67 0.910327
Target:  5'- gGAGCUCgcccACGGACAGAGUccccauuGGCCa- -3'
miRNA:   3'- -UUCGAG----UGCCUGUUUCAccu----CCGGcu -5'
4000 5' -55.5 NC_001650.1 + 56256 0.67 0.910327
Target:  5'- -cGCUCGCGGAgAGGG-GGuuGGgCGAa -3'
miRNA:   3'- uuCGAGUGCCUgUUUCaCCu-CCgGCU- -5'
4000 5' -55.5 NC_001650.1 + 3998 0.67 0.910327
Target:  5'- gGAGCUCgcccACGGACAGAGUccccauuGGCCa- -3'
miRNA:   3'- -UUCGAG----UGCCUGUUUCAccu----CCGGcu -5'
4000 5' -55.5 NC_001650.1 + 75048 0.67 0.909722
Target:  5'- cGGCUCGucccacuCGGGCcGGG-GGcAGGCCGAc -3'
miRNA:   3'- uUCGAGU-------GCCUGuUUCaCC-UCCGGCU- -5'
4000 5' -55.5 NC_001650.1 + 34543 0.67 0.897781
Target:  5'- cAGCggcaGCGGGCgGAAGaGGAGGcCCGAc -3'
miRNA:   3'- uUCGag--UGCCUG-UUUCaCCUCC-GGCU- -5'
4000 5' -55.5 NC_001650.1 + 80514 0.67 0.897781
Target:  5'- cAAGCUCGugUGGugGGAcggGGAGGCCu- -3'
miRNA:   3'- -UUCGAGU--GCCugUUUca-CCUCCGGcu -5'
4000 5' -55.5 NC_001650.1 + 60349 0.67 0.897781
Target:  5'- uGGCgaUCcCGGGCAcgcAGUGGGGGuuGAa -3'
miRNA:   3'- uUCG--AGuGCCUGUu--UCACCUCCggCU- -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.