miRNA display CGI


Results 1 - 20 of 21 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
16486 3' -58.8 NC_004084.1 + 3477 0.66 0.576971
Target:  5'- -cGCAUCCCGaggcggaggaUCCcgaucgagACGGCGAgCAGUa -3'
miRNA:   3'- ccUGUAGGGCg---------AGG--------UGCCGCUgGUCA- -5'
16486 3' -58.8 NC_004084.1 + 44752 0.66 0.576971
Target:  5'- cGACggCCUGCUCCAgguUGGCGAagacgagaCGGUc -3'
miRNA:   3'- cCUGuaGGGCGAGGU---GCCGCUg-------GUCA- -5'
16486 3' -58.8 NC_004084.1 + 21202 0.66 0.566462
Target:  5'- cGGAuCAUCCaGUacaUCgGCGGCGaaGCCGGUg -3'
miRNA:   3'- -CCU-GUAGGgCG---AGgUGCCGC--UGGUCA- -5'
16486 3' -58.8 NC_004084.1 + 5361 0.66 0.566462
Target:  5'- cGGACGUCUCGUUuaCUGCGGaCGccguGCCAGc -3'
miRNA:   3'- -CCUGUAGGGCGA--GGUGCC-GC----UGGUCa -5'
16486 3' -58.8 NC_004084.1 + 5281 0.66 0.556004
Target:  5'- cGACGUCCCGCagcggauggUCCGCcauccacucGGCGGCUccgucgAGUg -3'
miRNA:   3'- cCUGUAGGGCG---------AGGUG---------CCGCUGG------UCA- -5'
16486 3' -58.8 NC_004084.1 + 29518 0.66 0.545602
Target:  5'- cGGGCAcaCCCGCUUCGCcacccGCGGCgAGa -3'
miRNA:   3'- -CCUGUa-GGGCGAGGUGc----CGCUGgUCa -5'
16486 3' -58.8 NC_004084.1 + 29069 0.66 0.545602
Target:  5'- cGACcgCCCGCUCgGgGGCGucgucGCCgcGGUa -3'
miRNA:   3'- cCUGuaGGGCGAGgUgCCGC-----UGG--UCA- -5'
16486 3' -58.8 NC_004084.1 + 29931 0.66 0.535263
Target:  5'- cGGCguuGUCCUGCUCaccagaACGGCGAUCGu- -3'
miRNA:   3'- cCUG---UAGGGCGAGg-----UGCCGCUGGUca -5'
16486 3' -58.8 NC_004084.1 + 13893 0.66 0.535263
Target:  5'- aGGACcuuccCCUGCagCugGGCGACCGc- -3'
miRNA:   3'- -CCUGua---GGGCGagGugCCGCUGGUca -5'
16486 3' -58.8 NC_004084.1 + 51062 0.67 0.514801
Target:  5'- cGGAgCGaaCCGCgccUCCugGGaCGACCGGg -3'
miRNA:   3'- -CCU-GUagGGCG---AGGugCC-GCUGGUCa -5'
16486 3' -58.8 NC_004084.1 + 8160 0.67 0.50469
Target:  5'- aGGACcUCgCCGC-CaACGGCGACgAGg -3'
miRNA:   3'- -CCUGuAG-GGCGaGgUGCCGCUGgUCa -5'
16486 3' -58.8 NC_004084.1 + 43722 0.67 0.494664
Target:  5'- aGGACG-CCa--UCgAUGGCGACCGGUu -3'
miRNA:   3'- -CCUGUaGGgcgAGgUGCCGCUGGUCA- -5'
16486 3' -58.8 NC_004084.1 + 8400 0.67 0.494664
Target:  5'- gGGACAcCCCGCUCgGCGacaacGUGAUCAu- -3'
miRNA:   3'- -CCUGUaGGGCGAGgUGC-----CGCUGGUca -5'
16486 3' -58.8 NC_004084.1 + 55260 0.68 0.455526
Target:  5'- cGACGUCUaCGgUCgGCGGCGugUAGa -3'
miRNA:   3'- cCUGUAGG-GCgAGgUGCCGCugGUCa -5'
16486 3' -58.8 NC_004084.1 + 25198 0.68 0.445056
Target:  5'- gGGACggCCCGCUCgGCcgccucugucuucGGCucCCAGUa -3'
miRNA:   3'- -CCUGuaGGGCGAGgUG-------------CCGcuGGUCA- -5'
16486 3' -58.8 NC_004084.1 + 30451 0.68 0.436591
Target:  5'- cGACGUCCCGCuggggacguuccUCUACgaGGCGcuGCCGGa -3'
miRNA:   3'- cCUGUAGGGCG------------AGGUG--CCGC--UGGUCa -5'
16486 3' -58.8 NC_004084.1 + 35900 0.69 0.373243
Target:  5'- cGGACGUCCCGCUggaguggCCGCGuCGAgUGGa -3'
miRNA:   3'- -CCUGUAGGGCGA-------GGUGCcGCUgGUCa -5'
16486 3' -58.8 NC_004084.1 + 3940 0.7 0.317941
Target:  5'- cGACAUcaucCCCGCcgugaagacgaUCCGCGGCGA-CAGUg -3'
miRNA:   3'- cCUGUA----GGGCG-----------AGGUGCCGCUgGUCA- -5'
16486 3' -58.8 NC_004084.1 + 35523 0.73 0.211848
Target:  5'- gGGACAUCCUGCgcgugaucgaggaCCuCGGCGGCgAGUg -3'
miRNA:   3'- -CCUGUAGGGCGa------------GGuGCCGCUGgUCA- -5'
16486 3' -58.8 NC_004084.1 + 47148 0.83 0.046525
Target:  5'- gGGGCAcucguaccUCCUGCUCUACGGCGACUGGg -3'
miRNA:   3'- -CCUGU--------AGGGCGAGGUGCCGCUGGUCa -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.