miRNA display CGI


Results 1 - 18 of 18 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
18137 3' -65.4 NC_004680.1 + 25057 0.66 0.259834
Target:  5'- --cGGUgGCGGUGGGGCCGgucGGGaUCGGg -3'
miRNA:   3'- acaCCA-CGCCGCUCCGGC---CCC-GGCUa -5'
18137 3' -65.4 NC_004680.1 + 53870 0.66 0.253632
Target:  5'- gUGUGG-GUGGCGuugcaguucGGGCaCGGaGCCGAc -3'
miRNA:   3'- -ACACCaCGCCGC---------UCCG-GCCcCGGCUa -5'
18137 3' -65.4 NC_004680.1 + 54753 0.66 0.247552
Target:  5'- cGUGGUGUGGCGAaggugGGCauGGGaucaccuccCCGAa -3'
miRNA:   3'- aCACCACGCCGCU-----CCGgcCCC---------GGCUa -5'
18137 3' -65.4 NC_004680.1 + 25613 0.66 0.241004
Target:  5'- gGUGGgccgcGUGGCGGGGUCGGuuucucaGGCCu-- -3'
miRNA:   3'- aCACCa----CGCCGCUCCGGCC-------CCGGcua -5'
18137 3' -65.4 NC_004680.1 + 11189 0.67 0.230035
Target:  5'- --cGGccGCGGCGuucugcuugGGcGCCGGGGCCGc- -3'
miRNA:   3'- acaCCa-CGCCGC---------UC-CGGCCCCGGCua -5'
18137 3' -65.4 NC_004680.1 + 57910 0.67 0.213575
Target:  5'- gGUGGUagaGGUGGaaGCCGGGGCCGu- -3'
miRNA:   3'- aCACCAcg-CCGCUc-CGGCCCCGGCua -5'
18137 3' -65.4 NC_004680.1 + 21232 0.67 0.213044
Target:  5'- gGUGGauauuggguucgaUGCaGUGucgucGGCCGGGGCUGGUg -3'
miRNA:   3'- aCACC-------------ACGcCGCu----CCGGCCCCGGCUA- -5'
18137 3' -65.4 NC_004680.1 + 30684 0.67 0.208318
Target:  5'- cGUgGGUGCGacuGUGAGGCC--GGCCGAUc -3'
miRNA:   3'- aCA-CCACGC---CGCUCCGGccCCGGCUA- -5'
18137 3' -65.4 NC_004680.1 + 46165 0.68 0.198138
Target:  5'- gGUGGU-CGGCGAGGgCGuGGuGUCGGc -3'
miRNA:   3'- aCACCAcGCCGCUCCgGC-CC-CGGCUa -5'
18137 3' -65.4 NC_004680.1 + 33313 0.68 0.188394
Target:  5'- uUGUGGaugGCGGCccgguagucguuGAGgacGCCGGGGCgGAc -3'
miRNA:   3'- -ACACCa--CGCCG------------CUC---CGGCCCCGgCUa -5'
18137 3' -65.4 NC_004680.1 + 25716 0.69 0.161656
Target:  5'- uUG-GGUGCGGCGucggcgacGGCgGGGauGCCGAg -3'
miRNA:   3'- -ACaCCACGCCGCu-------CCGgCCC--CGGCUa -5'
18137 3' -65.4 NC_004680.1 + 25775 0.69 0.153532
Target:  5'- cUGUGGcGCaGGCguguuuguagauGAGGCCGGuGCCGGUg -3'
miRNA:   3'- -ACACCaCG-CCG------------CUCCGGCCcCGGCUA- -5'
18137 3' -65.4 NC_004680.1 + 28333 0.69 0.14961
Target:  5'- --cGG-GCGGUGucGGcGUCGGGGCCGAUc -3'
miRNA:   3'- acaCCaCGCCGC--UC-CGGCCCCGGCUA- -5'
18137 3' -65.4 NC_004680.1 + 47848 0.71 0.112136
Target:  5'- -cUGGcUGCGGCGGuuGGCCGGGucGCUGAg -3'
miRNA:   3'- acACC-ACGCCGCU--CCGGCCC--CGGCUa -5'
18137 3' -65.4 NC_004680.1 + 21615 0.72 0.088204
Target:  5'- --gGGUGacgcugcaGGCGuucucGGCCGGGGCCGGg -3'
miRNA:   3'- acaCCACg-------CCGCu----CCGGCCCCGGCUa -5'
18137 3' -65.4 NC_004680.1 + 13241 0.74 0.062053
Target:  5'- -cUGGUGCGGCGGuccGGUCGGGGaCCGc- -3'
miRNA:   3'- acACCACGCCGCU---CCGGCCCC-GGCua -5'
18137 3' -65.4 NC_004680.1 + 55775 0.74 0.060385
Target:  5'- --aGGUGUGGUGGuccacuGGCCGGGGUCGGa -3'
miRNA:   3'- acaCCACGCCGCU------CCGGCCCCGGCUa -5'
18137 3' -65.4 NC_004680.1 + 41426 1.05 0.000212
Target:  5'- gUGUGGUGCGGCGAGGCCGGGGCCGAUg -3'
miRNA:   3'- -ACACCACGCCGCUCCGGCCCCGGCUA- -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.