miRNA display CGI


Results 1 - 12 of 12 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
23475 3' -59.8 NC_005259.1 + 28016 0.76 0.11218
Target:  5'- gGUCgCCGGGGUUGcGCGCguuggCCAGCCAc -3'
miRNA:   3'- -UAG-GGCUCCAGCuCGCGaa---GGUCGGU- -5'
23475 3' -59.8 NC_005259.1 + 34150 0.66 0.48086
Target:  5'- cUUCCGAGGUCGuGGUGCcccaCCAguGCCGg -3'
miRNA:   3'- uAGGGCUCCAGC-UCGCGaa--GGU--CGGU- -5'
23475 3' -59.8 NC_005259.1 + 46801 0.67 0.471066
Target:  5'- --aCCGAGccugCGAGCGCaccaCCGGCCAc -3'
miRNA:   3'- uagGGCUCca--GCUCGCGaa--GGUCGGU- -5'
23475 3' -59.8 NC_005259.1 + 3845 0.67 0.442313
Target:  5'- uGUCCCucgcaccgucGAcgccGGUCGAGCGCcUCgAGCCc -3'
miRNA:   3'- -UAGGG----------CU----CCAGCUCGCGaAGgUCGGu -5'
23475 3' -59.8 NC_005259.1 + 4432 0.67 0.442313
Target:  5'- -gCCCGAGGUCGAGcCGC--CCGuGCgAg -3'
miRNA:   3'- uaGGGCUCCAGCUC-GCGaaGGU-CGgU- -5'
23475 3' -59.8 NC_005259.1 + 33599 0.68 0.396692
Target:  5'- --aCCGAggcgcGGUCGAGCuGCaaCCGGCCAc -3'
miRNA:   3'- uagGGCU-----CCAGCUCG-CGaaGGUCGGU- -5'
23475 3' -59.8 NC_005259.1 + 9969 0.68 0.387937
Target:  5'- -gCCCGAccaccgcaccGGUCGAG-GUggCCAGCCGg -3'
miRNA:   3'- uaGGGCU----------CCAGCUCgCGaaGGUCGGU- -5'
23475 3' -59.8 NC_005259.1 + 28975 0.69 0.322612
Target:  5'- gGUgCCGAGGccgCGAGCGCccgcuaCGGCCAc -3'
miRNA:   3'- -UAgGGCUCCa--GCUCGCGaag---GUCGGU- -5'
23475 3' -59.8 NC_005259.1 + 1294 0.71 0.259358
Target:  5'- -cCCCGAGGUCGAGCuCUaCgCGGUCGu -3'
miRNA:   3'- uaGGGCUCCAGCUCGcGAaG-GUCGGU- -5'
23475 3' -59.8 NC_005259.1 + 62833 0.72 0.206598
Target:  5'- -cCCgCGAGGUCGAGCGCgcggUUgacgagCAGCCGc -3'
miRNA:   3'- uaGG-GCUCCAGCUCGCGa---AG------GUCGGU- -5'
23475 3' -59.8 NC_005259.1 + 35582 0.75 0.143041
Target:  5'- gAUCCCguuguagcuGAGGUCGGGUGCgUCCuGGCCAc -3'
miRNA:   3'- -UAGGG---------CUCCAGCUCGCGaAGG-UCGGU- -5'
23475 3' -59.8 NC_005259.1 + 33051 0.66 0.531205
Target:  5'- uUgCCGGGGUCGcucgcGUGCUUCUgguauccgcuGGCCAc -3'
miRNA:   3'- uAgGGCUCCAGCu----CGCGAAGG----------UCGGU- -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.