miRNA display CGI


Results 1 - 20 of 43 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
8992 3' -58.2 NC_002512.2 + 7341 0.66 0.903301
Target:  5'- uCGGGUCGccguagccccgGCCCACCGcGACGGcgGCc -3'
miRNA:   3'- -GUCUAGUa----------CGGGUGGCcCUGCCa-CGu -5'
8992 3' -58.2 NC_002512.2 + 11284 0.66 0.903301
Target:  5'- --cAUgGUGCCCACagCGGGACGaGUuGCGa -3'
miRNA:   3'- gucUAgUACGGGUG--GCCCUGC-CA-CGU- -5'
8992 3' -58.2 NC_002512.2 + 16013 0.7 0.6781
Target:  5'- aUAGGUCGg--CCGCCGGGugGGgaaggGCAg -3'
miRNA:   3'- -GUCUAGUacgGGUGGCCCugCCa----CGU- -5'
8992 3' -58.2 NC_002512.2 + 17834 0.67 0.863213
Target:  5'- cCAGggUGUGCgCCAgcagcuccucCCGGGcGCGGUGCu -3'
miRNA:   3'- -GUCuaGUACG-GGU----------GGCCC-UGCCACGu -5'
8992 3' -58.2 NC_002512.2 + 27097 0.67 0.832575
Target:  5'- gCGGugagCAUGCUCGCuCGGG-UGGUGCc -3'
miRNA:   3'- -GUCua--GUACGGGUG-GCCCuGCCACGu -5'
8992 3' -58.2 NC_002512.2 + 35041 0.66 0.902695
Target:  5'- -cGAUCGggGUCCGCaCGGGccgggacagcaccACGGUGCc -3'
miRNA:   3'- guCUAGUa-CGGGUG-GCCC-------------UGCCACGu -5'
8992 3' -58.2 NC_002512.2 + 47678 0.67 0.870404
Target:  5'- -cGAaCGUGCuguuCCACCcgGGGGCGGUGUu -3'
miRNA:   3'- guCUaGUACG----GGUGG--CCCUGCCACGu -5'
8992 3' -58.2 NC_002512.2 + 50575 0.72 0.57986
Target:  5'- aGGAUC-UGCCCgccucGCCGcccgcggacuGGACGGUGCGa -3'
miRNA:   3'- gUCUAGuACGGG-----UGGC----------CCUGCCACGU- -5'
8992 3' -58.2 NC_002512.2 + 67808 0.69 0.745198
Target:  5'- -cGGUCAccCCCACCGGGACGaaacacgGCAg -3'
miRNA:   3'- guCUAGUacGGGUGGCCCUGCca-----CGU- -5'
8992 3' -58.2 NC_002512.2 + 72796 0.66 0.903301
Target:  5'- cCGGGaCggGCCCGCCGuGGGCGccgGCGa -3'
miRNA:   3'- -GUCUaGuaCGGGUGGC-CCUGCca-CGU- -5'
8992 3' -58.2 NC_002512.2 + 75557 0.66 0.877397
Target:  5'- ----gCggGCUCGCCGGGGCGGgGCc -3'
miRNA:   3'- gucuaGuaCGGGUGGCCCUGCCaCGu -5'
8992 3' -58.2 NC_002512.2 + 82029 0.7 0.697565
Target:  5'- cCGGGUCGggGUCgCGCCGGcGGCGGUcGCGg -3'
miRNA:   3'- -GUCUAGUa-CGG-GUGGCC-CUGCCA-CGU- -5'
8992 3' -58.2 NC_002512.2 + 83976 0.67 0.863213
Target:  5'- gCGGA---UGCCCgGCgCGGGGCGGUcGCGc -3'
miRNA:   3'- -GUCUaguACGGG-UG-GCCCUGCCA-CGU- -5'
8992 3' -58.2 NC_002512.2 + 106615 0.73 0.550766
Target:  5'- cCAGGUCuggAUGUCCGCCGGGG-GGUaGCGg -3'
miRNA:   3'- -GUCUAG---UACGGGUGGCCCUgCCA-CGU- -5'
8992 3' -58.2 NC_002512.2 + 108546 0.66 0.903301
Target:  5'- gCGGAgaagGUCCGCCGGGccuuccgacCGGUGCu -3'
miRNA:   3'- -GUCUaguaCGGGUGGCCCu--------GCCACGu -5'
8992 3' -58.2 NC_002512.2 + 112900 0.68 0.816217
Target:  5'- gCGGccGUCG-GCCCGCCcGGACGGgGCGu -3'
miRNA:   3'- -GUC--UAGUaCGGGUGGcCCUGCCaCGU- -5'
8992 3' -58.2 NC_002512.2 + 116372 0.68 0.807802
Target:  5'- aGGGUCAUGCuggcccugcgguCC-CCGGGGCGGgucGCc -3'
miRNA:   3'- gUCUAGUACG------------GGuGGCCCUGCCa--CGu -5'
8992 3' -58.2 NC_002512.2 + 119016 0.66 0.897143
Target:  5'- uGGAUCGUGCcgcugCCGCUGGcGACGGa--- -3'
miRNA:   3'- gUCUAGUACG-----GGUGGCC-CUGCCacgu -5'
8992 3' -58.2 NC_002512.2 + 119423 0.66 0.884187
Target:  5'- gGGAgCGUGgaCCGCgGGGACcuGGUGCGc -3'
miRNA:   3'- gUCUaGUACg-GGUGgCCCUG--CCACGU- -5'
8992 3' -58.2 NC_002512.2 + 119532 0.68 0.816217
Target:  5'- cCAGGUCGUccgagcuguugGCCCGCUuGG-CGGUGUAg -3'
miRNA:   3'- -GUCUAGUA-----------CGGGUGGcCCuGCCACGU- -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.