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
18075 5' -54.2 NC_004680.1 + 17760 0.66 0.822147
Target:  5'- aGCCcaaGCu-UCAAC-CCGAUUCAGGCUg -3'
miRNA:   3'- -CGG---CGcuAGUUGaGGCUGAGUCUGGu -5'
18075 5' -54.2 NC_004680.1 + 41393 0.66 0.812888
Target:  5'- gGCgGCGAUCAGCagCGGCaUCGuccACCAa -3'
miRNA:   3'- -CGgCGCUAGUUGagGCUG-AGUc--UGGU- -5'
18075 5' -54.2 NC_004680.1 + 56051 0.66 0.812888
Target:  5'- aCUGCGG-CGACgCCGACUgccCAGACUg -3'
miRNA:   3'- cGGCGCUaGUUGaGGCUGA---GUCUGGu -5'
18075 5' -54.2 NC_004680.1 + 32307 0.66 0.793814
Target:  5'- aGCUGCGA-CcGCUgCGGCUCAGGgaCAa -3'
miRNA:   3'- -CGGCGCUaGuUGAgGCUGAGUCUg-GU- -5'
18075 5' -54.2 NC_004680.1 + 31923 0.67 0.763974
Target:  5'- aGCCGgGGUCGguguggcggagGCUugCCGA-UCAGGCCGa -3'
miRNA:   3'- -CGGCgCUAGU-----------UGA--GGCUgAGUCUGGU- -5'
18075 5' -54.2 NC_004680.1 + 1536 0.67 0.753743
Target:  5'- uUCGCGAUCcGCUCaaacuGACcCGGACCc -3'
miRNA:   3'- cGGCGCUAGuUGAGg----CUGaGUCUGGu -5'
18075 5' -54.2 NC_004680.1 + 24905 0.67 0.743389
Target:  5'- cGCCgGCGGUgguggCggUUCCGGUUCAGAUCAg -3'
miRNA:   3'- -CGG-CGCUA-----GuuGAGGCUGAGUCUGGU- -5'
18075 5' -54.2 NC_004680.1 + 9061 0.67 0.743389
Target:  5'- uCCGCGAUCGugaaGC-CCuGCUCGGuCCAc -3'
miRNA:   3'- cGGCGCUAGU----UGaGGcUGAGUCuGGU- -5'
18075 5' -54.2 NC_004680.1 + 49975 0.67 0.742347
Target:  5'- cGCCGCcgaGAUCGACagagCCcucggagGACUCAGGCgGg -3'
miRNA:   3'- -CGGCG---CUAGUUGa---GG-------CUGAGUCUGgU- -5'
18075 5' -54.2 NC_004680.1 + 18592 0.68 0.690168
Target:  5'- uGCCaGCGAUCGACUCCGGgg-AGAUg- -3'
miRNA:   3'- -CGG-CGCUAGUUGAGGCUgagUCUGgu -5'
18075 5' -54.2 NC_004680.1 + 30357 0.68 0.690168
Target:  5'- cGCCccggucguaGCGGUCAGUUuuGGCgggCAGGCCAa -3'
miRNA:   3'- -CGG---------CGCUAGUUGAggCUGa--GUCUGGU- -5'
18075 5' -54.2 NC_004680.1 + 54278 0.68 0.679313
Target:  5'- cGUCGUGggUGACUUCGAUUCGGAUg- -3'
miRNA:   3'- -CGGCGCuaGUUGAGGCUGAGUCUGgu -5'
18075 5' -54.2 NC_004680.1 + 35203 0.69 0.635551
Target:  5'- cGCCGCGAccagugacaCGACgcagCCGAgccaacCUCGGGCCGg -3'
miRNA:   3'- -CGGCGCUa--------GUUGa---GGCU------GAGUCUGGU- -5'
18075 5' -54.2 NC_004680.1 + 59341 0.7 0.591735
Target:  5'- gGCCGCGuUCGAUcaggcgUUCGAuCUCGGGCCc -3'
miRNA:   3'- -CGGCGCuAGUUG------AGGCU-GAGUCUGGu -5'
18075 5' -54.2 NC_004680.1 + 15248 0.7 0.559195
Target:  5'- cGUCGUGGUgGcUUCCGAUUCAGGCaCAg -3'
miRNA:   3'- -CGGCGCUAgUuGAGGCUGAGUCUG-GU- -5'
18075 5' -54.2 NC_004680.1 + 13866 0.71 0.537779
Target:  5'- gGCCGCGAcagCAACggCGACUgGGACg- -3'
miRNA:   3'- -CGGCGCUa--GUUGagGCUGAgUCUGgu -5'
18075 5' -54.2 NC_004680.1 + 34122 0.71 0.516652
Target:  5'- uGCCGCGAguugugCGGCggcaaCGACUCgguuGGACCGa -3'
miRNA:   3'- -CGGCGCUa-----GUUGag---GCUGAG----UCUGGU- -5'
18075 5' -54.2 NC_004680.1 + 5654 0.72 0.465424
Target:  5'- uCCGCGcugGUCAGCUUCGACcCGGACgAa -3'
miRNA:   3'- cGGCGC---UAGUUGAGGCUGaGUCUGgU- -5'
18075 5' -54.2 NC_004680.1 + 9345 1.11 0.001057
Target:  5'- cGCCGCGAUCAACUCCGACUCAGACCAg -3'
miRNA:   3'- -CGGCGCUAGUUGAGGCUGAGUCUGGU- -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.