miRNA display CGI


Results 1 - 17 of 17 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
1267 5' -57.5 NC_001317.1 + 2749 0.8 0.035398
Target:  5'- cAGAGCugGCCACCGGCGAgcgcgcggugacUGAUGUCAAUu -3'
miRNA:   3'- -UCUCG--CGGUGGCCGCU------------ACUACGGUUA- -5'
1267 5' -57.5 NC_001317.1 + 7694 0.66 0.390069
Target:  5'- -cAGCGCCGCUuuaagucacaaaagGGgGAaagUGAUGCCGGUc -3'
miRNA:   3'- ucUCGCGGUGG--------------CCgCU---ACUACGGUUA- -5'
1267 5' -57.5 NC_001317.1 + 15578 0.69 0.247363
Target:  5'- uGGGCGCaguaugccgCGCCGGgGGcUGAUGCCGu- -3'
miRNA:   3'- uCUCGCG---------GUGGCCgCU-ACUACGGUua -5'
1267 5' -57.5 NC_001317.1 + 7092 0.69 0.247363
Target:  5'- uGAGCGCUAUcgCGGCGuUGAgGCCAc- -3'
miRNA:   3'- uCUCGCGGUG--GCCGCuACUaCGGUua -5'
1267 5' -57.5 NC_001317.1 + 4700 0.7 0.193
Target:  5'- cGAaaGCCAgCGGCGGUGGUGgCGAUg -3'
miRNA:   3'- uCUcgCGGUgGCCGCUACUACgGUUA- -5'
1267 5' -57.5 NC_001317.1 + 9223 0.71 0.182435
Target:  5'- aGGAGCGCCucGCCGGUc-UGAUuGCCAGc -3'
miRNA:   3'- -UCUCGCGG--UGGCCGcuACUA-CGGUUa -5'
1267 5' -57.5 NC_001317.1 + 14825 0.66 0.392906
Target:  5'- cGAGUG-CGCgGGCGGUGGcguaUGCCGu- -3'
miRNA:   3'- uCUCGCgGUGgCCGCUACU----ACGGUua -5'
1267 5' -57.5 NC_001317.1 + 19099 0.66 0.383501
Target:  5'- uGAGauccaGCCGCCGGUGAUGGcUGgguaCAGUg -3'
miRNA:   3'- uCUCg----CGGUGGCCGCUACU-ACg---GUUA- -5'
1267 5' -57.5 NC_001317.1 + 612 0.66 0.377931
Target:  5'- cAGAGCGCgACCGacgucgaaucgcugcGCGAggcGAUGCgCAAc -3'
miRNA:   3'- -UCUCGCGgUGGC---------------CGCUa--CUACG-GUUa -5'
1267 5' -57.5 NC_001317.1 + 9375 0.67 0.33877
Target:  5'- cGGGUGCCuGCUGGCGcuUGAUGCg--- -3'
miRNA:   3'- uCUCGCGG-UGGCCGCu-ACUACGguua -5'
1267 5' -57.5 NC_001317.1 + 2434 0.68 0.29795
Target:  5'- uGGAGCGCCACCaguggaagGGC-AUGGacuuUGCCGc- -3'
miRNA:   3'- -UCUCGCGGUGG--------CCGcUACU----ACGGUua -5'
1267 5' -57.5 NC_001317.1 + 6682 0.69 0.254129
Target:  5'- gGGAGCGUUcguuaACCGGCGGUuuuUGCCGc- -3'
miRNA:   3'- -UCUCGCGG-----UGGCCGCUAcu-ACGGUua -5'
1267 5' -57.5 NC_001317.1 + 28809 0.7 0.215744
Target:  5'- cAGGGCuucGCC-CCGGCuGAuugUGAUGCCGGUu -3'
miRNA:   3'- -UCUCG---CGGuGGCCG-CU---ACUACGGUUA- -5'
1267 5' -57.5 NC_001317.1 + 2472 0.72 0.153758
Target:  5'- --cGCGCCGCCGGUGGuuucUGGUGgCAAg -3'
miRNA:   3'- ucuCGCGGUGGCCGCU----ACUACgGUUa -5'
1267 5' -57.5 NC_001317.1 + 5097 0.72 0.145145
Target:  5'- -aGGUGUCggucguGCUGGCGAUGGUGCCGGUc -3'
miRNA:   3'- ucUCGCGG------UGGCCGCUACUACGGUUA- -5'
1267 5' -57.5 NC_001317.1 + 18086 1.06 0.000374
Target:  5'- uAGAGCGCCACCGGCGAUGAUGCCAAUg -3'
miRNA:   3'- -UCUCGCGGUGGCCGCUACUACGGUUA- -5'
1267 5' -57.5 NC_001317.1 + 18740 0.66 0.40246
Target:  5'- aAGAGCGucCCGCCGGUGcgGuaacugGCUggUa -3'
miRNA:   3'- -UCUCGC--GGUGGCCGCuaCua----CGGuuA- -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.