miRNA display CGI


Results 1 - 19 of 19 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
16690 3' -48.7 NC_004156.1 + 163765 1.11 0.016675
Target:  5'- gAGUACCGAUGCAUCACUCCAAAGUGAg -3'
miRNA:   3'- -UCAUGGCUACGUAGUGAGGUUUCACU- -5'
16690 3' -48.7 NC_004156.1 + 206075 0.73 0.955098
Target:  5'- uGGUACCGGUGCuGUCACUggagCCAAuaUGAg -3'
miRNA:   3'- -UCAUGGCUACG-UAGUGA----GGUUucACU- -5'
16690 3' -48.7 NC_004156.1 + 180844 0.73 0.96602
Target:  5'- cGGUACgGAUGCG----UCCAAAGUGAu -3'
miRNA:   3'- -UCAUGgCUACGUagugAGGUUUCACU- -5'
16690 3' -48.7 NC_004156.1 + 212598 0.71 0.985791
Target:  5'- uGUAUUuGUGCAUUAUUCCuGAGUGAa -3'
miRNA:   3'- uCAUGGcUACGUAGUGAGGuUUCACU- -5'
16690 3' -48.7 NC_004156.1 + 156206 0.7 0.990303
Target:  5'- cAGUACCGGU-CAUCACa-CAGAGUGc -3'
miRNA:   3'- -UCAUGGCUAcGUAGUGagGUUUCACu -5'
16690 3' -48.7 NC_004156.1 + 116411 0.7 0.990303
Target:  5'- gAGUAUCGA-GCGUC-CUCC--GGUGAu -3'
miRNA:   3'- -UCAUGGCUaCGUAGuGAGGuuUCACU- -5'
16690 3' -48.7 NC_004156.1 + 226227 0.7 0.992624
Target:  5'- gAGUuCUGAUGCAa-GCUCCAAGGUa- -3'
miRNA:   3'- -UCAuGGCUACGUagUGAGGUUUCAcu -5'
16690 3' -48.7 NC_004156.1 + 164054 0.7 0.993605
Target:  5'- --cGCCGcAUGgAUCGCaCCAAAGUGGg -3'
miRNA:   3'- ucaUGGC-UACgUAGUGaGGUUUCACU- -5'
16690 3' -48.7 NC_004156.1 + 81427 0.69 0.997065
Target:  5'- uGGUGCCGAUcgcacGCAUCAgUCCGuaacAGUa- -3'
miRNA:   3'- -UCAUGGCUA-----CGUAGUgAGGUu---UCAcu -5'
16690 3' -48.7 NC_004156.1 + 213654 0.68 0.998472
Target:  5'- gAGUACCGGugucguucagagugUGCAUCGCUCUu--GUa- -3'
miRNA:   3'- -UCAUGGCU--------------ACGUAGUGAGGuuuCAcu -5'
16690 3' -48.7 NC_004156.1 + 203445 0.67 0.999197
Target:  5'- uGGUugUGGUGCAg-ACUCCucAGAGUGc -3'
miRNA:   3'- -UCAugGCUACGUagUGAGG--UUUCACu -5'
16690 3' -48.7 NC_004156.1 + 19194 0.67 0.999347
Target:  5'- uAGUGuuGgGUGCAUCG-UUCAAAGUGGc -3'
miRNA:   3'- -UCAUggC-UACGUAGUgAGGUUUCACU- -5'
16690 3' -48.7 NC_004156.1 + 183342 0.67 0.999473
Target:  5'- cAGUGCgGccaGCGUCGCUCCcAGGUa- -3'
miRNA:   3'- -UCAUGgCua-CGUAGUGAGGuUUCAcu -5'
16690 3' -48.7 NC_004156.1 + 97246 0.67 0.999567
Target:  5'- cAGcACuCGAUacGCAUUcacuuugGCUCCAAGGUGAu -3'
miRNA:   3'- -UCaUG-GCUA--CGUAG-------UGAGGUUUCACU- -5'
16690 3' -48.7 NC_004156.1 + 156781 0.67 0.999577
Target:  5'- uGGUGCCGAaucccgagUGCGUgauaaagcuucgCACcUCAGAGUGAu -3'
miRNA:   3'- -UCAUGGCU--------ACGUA------------GUGaGGUUUCACU- -5'
16690 3' -48.7 NC_004156.1 + 113680 0.66 0.999732
Target:  5'- cAGUACCGugaGCA-CGCUCCGAAa--- -3'
miRNA:   3'- -UCAUGGCua-CGUaGUGAGGUUUcacu -5'
16690 3' -48.7 NC_004156.1 + 40457 0.66 0.999732
Target:  5'- uGUACCGG-GCAUCACUuuGAucGGUu- -3'
miRNA:   3'- uCAUGGCUaCGUAGUGAggUU--UCAcu -5'
16690 3' -48.7 NC_004156.1 + 15064 0.66 0.999835
Target:  5'- --gGCCGAagugauucagUGCAUgCACUCCAaauuaAAGUGu -3'
miRNA:   3'- ucaUGGCU----------ACGUA-GUGAGGU-----UUCACu -5'
16690 3' -48.7 NC_004156.1 + 106836 0.66 0.999872
Target:  5'- cGGUACCGAUGUacAUCugAUUCU--AGUGGa -3'
miRNA:   3'- -UCAUGGCUACG--UAG--UGAGGuuUCACU- -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.