miRNA display CGI


Results 1 - 20 of 24 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
28087 5' -58.2 NC_005887.1 + 2177 0.66 0.503566
Target:  5'- uUCGGCCugacGCCGGccGCGGuGaUCGGGCa- -3'
miRNA:   3'- uAGCCGGu---UGGCC--UGCU-C-AGCUCGcu -5'
28087 5' -58.2 NC_005887.1 + 16078 0.66 0.503566
Target:  5'- uUCGGCC-ACUGGugGAaccUCGAG-GAa -3'
miRNA:   3'- uAGCCGGuUGGCCugCUc--AGCUCgCU- -5'
28087 5' -58.2 NC_005887.1 + 27655 0.66 0.483003
Target:  5'- -cCGGCCcgcccGCCGcGACGAGcccgaUCGuGCGGg -3'
miRNA:   3'- uaGCCGGu----UGGC-CUGCUC-----AGCuCGCU- -5'
28087 5' -58.2 NC_005887.1 + 1921 0.66 0.472874
Target:  5'- uUCGG-CAGCCGGGCGGcGUCaugcgugacGGCGAu -3'
miRNA:   3'- uAGCCgGUUGGCCUGCU-CAGc--------UCGCU- -5'
28087 5' -58.2 NC_005887.1 + 10175 0.66 0.472874
Target:  5'- cAUCGGCau-CCGGACGcgaacgguuucGUCGAGUGc -3'
miRNA:   3'- -UAGCCGguuGGCCUGCu----------CAGCUCGCu -5'
28087 5' -58.2 NC_005887.1 + 15593 0.66 0.462853
Target:  5'- -cCGGCCGACUgguucgaccuGGACGAGccgaUCGuGCGc -3'
miRNA:   3'- uaGCCGGUUGG----------CCUGCUC----AGCuCGCu -5'
28087 5' -58.2 NC_005887.1 + 6229 0.66 0.462853
Target:  5'- -cCGaGCCAcGCCGGACGuucgaAGUCGA-CGAg -3'
miRNA:   3'- uaGC-CGGU-UGGCCUGC-----UCAGCUcGCU- -5'
28087 5' -58.2 NC_005887.1 + 40410 0.67 0.452944
Target:  5'- -aCGGCCGacguGCCGGuCGAacUCGAGCuGAu -3'
miRNA:   3'- uaGCCGGU----UGGCCuGCUc-AGCUCG-CU- -5'
28087 5' -58.2 NC_005887.1 + 31896 0.67 0.440238
Target:  5'- cGUCGGCCAGCCGGucaggcaugcugcuGCaAGaucCGGGCGu -3'
miRNA:   3'- -UAGCCGGUUGGCC--------------UGcUCa--GCUCGCu -5'
28087 5' -58.2 NC_005887.1 + 6016 0.67 0.405222
Target:  5'- cGUCGGCCuauACCuGGAuCGAGUgCGcGGCGu -3'
miRNA:   3'- -UAGCCGGu--UGG-CCU-GCUCA-GC-UCGCu -5'
28087 5' -58.2 NC_005887.1 + 15515 0.67 0.405222
Target:  5'- -cCGGCCAGuuuCCGGACGucgcgaGGUucgucaCGGGCGAc -3'
miRNA:   3'- uaGCCGGUU---GGCCUGC------UCA------GCUCGCU- -5'
28087 5' -58.2 NC_005887.1 + 7023 0.68 0.387039
Target:  5'- -cCGGCC-GCCGcGGCGcgcggcAGUgGAGCGAu -3'
miRNA:   3'- uaGCCGGuUGGC-CUGC------UCAgCUCGCU- -5'
28087 5' -58.2 NC_005887.1 + 14374 0.69 0.343996
Target:  5'- uUCGGCCcgAGCCGGcgGCGGcaaGAGCGAu -3'
miRNA:   3'- uAGCCGG--UUGGCC--UGCUcagCUCGCU- -5'
28087 5' -58.2 NC_005887.1 + 23765 0.69 0.312117
Target:  5'- aAUCGGCCGACUGGAacgcCGcGaCGAGCa- -3'
miRNA:   3'- -UAGCCGGUUGGCCU----GCuCaGCUCGcu -5'
28087 5' -58.2 NC_005887.1 + 17683 0.69 0.304506
Target:  5'- -cCGGCCGcgGCUGGACaauGUCGaAGCGGa -3'
miRNA:   3'- uaGCCGGU--UGGCCUGcu-CAGC-UCGCU- -5'
28087 5' -58.2 NC_005887.1 + 15215 0.71 0.235559
Target:  5'- uUCGGCCGcgugaucGCC-GACGAGUCGA-CGAa -3'
miRNA:   3'- uAGCCGGU-------UGGcCUGCUCAGCUcGCU- -5'
28087 5' -58.2 NC_005887.1 + 17250 0.71 0.226514
Target:  5'- -aCGGCgGcgucaauaagaucguGCCGGGCGAgacGUCGGGCGGc -3'
miRNA:   3'- uaGCCGgU---------------UGGCCUGCU---CAGCUCGCU- -5'
28087 5' -58.2 NC_005887.1 + 18243 0.72 0.2071
Target:  5'- cUCGGCCAcGCCGGGCaccGUCacGGGCGAg -3'
miRNA:   3'- uAGCCGGU-UGGCCUGcu-CAG--CUCGCU- -5'
28087 5' -58.2 NC_005887.1 + 26750 0.73 0.178262
Target:  5'- gAUCGGCucguccaggucgaacCAGUCGGcCGGGUCGAGCGAg -3'
miRNA:   3'- -UAGCCG---------------GUUGGCCuGCUCAGCUCGCU- -5'
28087 5' -58.2 NC_005887.1 + 41671 0.74 0.158161
Target:  5'- cGUUGGCgAGCCGGACGaAGguagCGAGCu- -3'
miRNA:   3'- -UAGCCGgUUGGCCUGC-UCa---GCUCGcu -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.