miRNA display CGI


Results 1 - 20 of 42 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
30479 3' -58.3 NC_006548.1 + 22916 0.76 0.115597
Target:  5'- cGCGGCGgcgaGUUgGGCCGGACuauCGGg -3'
miRNA:   3'- aCGCUGCag--CGAgCCGGCCUGuu-GCC- -5'
30479 3' -58.3 NC_006548.1 + 17052 0.66 0.516162
Target:  5'- cGCGACcaUCGCcaaGGUCGGGCu-CGGc -3'
miRNA:   3'- aCGCUGc-AGCGag-CCGGCCUGuuGCC- -5'
30479 3' -58.3 NC_006548.1 + 33733 0.66 0.495536
Target:  5'- cGCGAUGagcuucagugaUCGCgagCGGUCGGucgcCGAUGGc -3'
miRNA:   3'- aCGCUGC-----------AGCGa--GCCGGCCu---GUUGCC- -5'
30479 3' -58.3 NC_006548.1 + 13402 0.66 0.47429
Target:  5'- aGCGGCGUCaCUCcggcggacauccuGGCCuuugcccaGGACuACGGg -3'
miRNA:   3'- aCGCUGCAGcGAG-------------CCGG--------CCUGuUGCC- -5'
30479 3' -58.3 NC_006548.1 + 35377 0.67 0.455468
Target:  5'- gGCGACGagCGCUcaaCGGaUgGGACggUGGa -3'
miRNA:   3'- aCGCUGCa-GCGA---GCC-GgCCUGuuGCC- -5'
30479 3' -58.3 NC_006548.1 + 9300 0.67 0.445725
Target:  5'- cGCuGGCGgauGCUCaGCCGGGCGAUa- -3'
miRNA:   3'- aCG-CUGCag-CGAGcCGGCCUGUUGcc -5'
30479 3' -58.3 NC_006548.1 + 35882 0.67 0.426594
Target:  5'- cGCGAUc-CGCgCGGCCGG-CGGCGu -3'
miRNA:   3'- aCGCUGcaGCGaGCCGGCCuGUUGCc -5'
30479 3' -58.3 NC_006548.1 + 5696 0.67 0.426594
Target:  5'- cUGCGcGCGUagaCGUUUGGCCGccucGACAuGCGGa -3'
miRNA:   3'- -ACGC-UGCA---GCGAGCCGGC----CUGU-UGCC- -5'
30479 3' -58.3 NC_006548.1 + 26331 0.67 0.407961
Target:  5'- aGCG-CGuUCGg-CGGCCGGGuCGAUGGc -3'
miRNA:   3'- aCGCuGC-AGCgaGCCGGCCU-GUUGCC- -5'
30479 3' -58.3 NC_006548.1 + 36757 0.68 0.389844
Target:  5'- gGCGACGcUCGCagagagccUCGcGCCGGuCGACu- -3'
miRNA:   3'- aCGCUGC-AGCG--------AGC-CGGCCuGUUGcc -5'
30479 3' -58.3 NC_006548.1 + 33860 0.69 0.338749
Target:  5'- -aUGACcuuUCGCgcgCGGCCGGugAGCGa -3'
miRNA:   3'- acGCUGc--AGCGa--GCCGGCCugUUGCc -5'
30479 3' -58.3 NC_006548.1 + 22154 0.72 0.22122
Target:  5'- cGCGGCugaacaUCGCUCGGCCgGGGCAGa-- -3'
miRNA:   3'- aCGCUGc-----AGCGAGCCGG-CCUGUUgcc -5'
30479 3' -58.3 NC_006548.1 + 35722 0.71 0.233009
Target:  5'- -aCGACGUCGCgacgCuGCCcguauucgaugaGGACAGCGGg -3'
miRNA:   3'- acGCUGCAGCGa---GcCGG------------CCUGUUGCC- -5'
30479 3' -58.3 NC_006548.1 + 36047 0.71 0.245323
Target:  5'- gGCGACGUguucugCGUUCGcaGCCGGAagcGCGGg -3'
miRNA:   3'- aCGCUGCA------GCGAGC--CGGCCUgu-UGCC- -5'
30479 3' -58.3 NC_006548.1 + 31182 0.71 0.258172
Target:  5'- cGCaGA-GUCGCUCGGCUGGGucacCGACcGGg -3'
miRNA:   3'- aCG-CUgCAGCGAGCCGGCCU----GUUG-CC- -5'
30479 3' -58.3 NC_006548.1 + 32569 0.7 0.27847
Target:  5'- cGCGugGcCGUUUGcGCCGGACugggcuGAUGGc -3'
miRNA:   3'- aCGCugCaGCGAGC-CGGCCUG------UUGCC- -5'
30479 3' -58.3 NC_006548.1 + 36580 0.69 0.322833
Target:  5'- cGCGAUcaaCGCcgCGGCCGGcACcGCGGu -3'
miRNA:   3'- aCGCUGca-GCGa-GCCGGCC-UGuUGCC- -5'
30479 3' -58.3 NC_006548.1 + 33613 0.69 0.328339
Target:  5'- aGCGACGUCGCacgcaucucaUucaugacacuuugcCGGCaGGACAGCGa -3'
miRNA:   3'- aCGCUGCAGCG----------A--------------GCCGgCCUGUUGCc -5'
30479 3' -58.3 NC_006548.1 + 1051 0.66 0.516162
Target:  5'- cGCu-CGUCagcaGCUCGGCCugcaGGACGAUGu -3'
miRNA:   3'- aCGcuGCAG----CGAGCCGG----CCUGUUGCc -5'
30479 3' -58.3 NC_006548.1 + 15583 0.72 0.204492
Target:  5'- gGCcACGUCGUcgUCGGCCGGAUuGCa- -3'
miRNA:   3'- aCGcUGCAGCG--AGCCGGCCUGuUGcc -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.