miRNA display CGI


Results 1 - 20 of 21 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
18713 3' -61.8 NC_004682.1 + 37948 0.66 0.384574
Target:  5'- uCGCGGCGCGuucucGggGUaCCUcggCCAGCCGa -3'
miRNA:   3'- cGUGCCGCGC-----CaaCGcGGA---GGUCGGC- -5'
18713 3' -61.8 NC_004682.1 + 3252 0.66 0.383715
Target:  5'- -gGCGGCGCaggcaacccacccGGUgGCGgCggugCCAGCCa -3'
miRNA:   3'- cgUGCCGCG-------------CCAaCGCgGa---GGUCGGc -5'
18713 3' -61.8 NC_004682.1 + 41404 0.66 0.376039
Target:  5'- cGCcuuguCGGCGUcGUUGUaGCCUCCGGUg- -3'
miRNA:   3'- -CGu----GCCGCGcCAACG-CGGAGGUCGgc -5'
18713 3' -61.8 NC_004682.1 + 41949 0.66 0.359356
Target:  5'- uGCGCGGCcagcucgcGCGGUcUGUGCUggccCCGGCa- -3'
miRNA:   3'- -CGUGCCG--------CGCCA-ACGCGGa---GGUCGgc -5'
18713 3' -61.8 NC_004682.1 + 22860 0.66 0.351211
Target:  5'- cGCugGuGCGCGGUgGCaucaugGCCgucgUCGGCCu -3'
miRNA:   3'- -CGugC-CGCGCCAaCG------CGGa---GGUCGGc -5'
18713 3' -61.8 NC_004682.1 + 8770 0.66 0.348793
Target:  5'- ---gGGUGCGGUUGCGCUuacucaucaggaagUCCugucucgcGCCGa -3'
miRNA:   3'- cgugCCGCGCCAACGCGG--------------AGGu-------CGGC- -5'
18713 3' -61.8 NC_004682.1 + 28393 0.67 0.335317
Target:  5'- -aGCGGCGUGGgucgaUGCGUggcagUCCAuGCCGa -3'
miRNA:   3'- cgUGCCGCGCCa----ACGCGg----AGGU-CGGC- -5'
18713 3' -61.8 NC_004682.1 + 40837 0.67 0.335317
Target:  5'- ---gGGCGUGGg-GUGCCcgCCAGUCGg -3'
miRNA:   3'- cgugCCGCGCCaaCGCGGa-GGUCGGC- -5'
18713 3' -61.8 NC_004682.1 + 42540 0.67 0.327569
Target:  5'- aCGUGGCuCGGcgGCGCCUCUgcGGCCa -3'
miRNA:   3'- cGUGCCGcGCCaaCGCGGAGG--UCGGc -5'
18713 3' -61.8 NC_004682.1 + 35195 0.67 0.327569
Target:  5'- cGCGCaGuGCGUGGUggccggcggugUGCGCCggUCAGCgCGg -3'
miRNA:   3'- -CGUG-C-CGCGCCA-----------ACGCGGa-GGUCG-GC- -5'
18713 3' -61.8 NC_004682.1 + 13937 0.67 0.311733
Target:  5'- aGCGCGucgauGCGCGGgccugUGCcagguuggccucgGCCuUCCGGCCu -3'
miRNA:   3'- -CGUGC-----CGCGCCa----ACG-------------CGG-AGGUCGGc -5'
18713 3' -61.8 NC_004682.1 + 39338 0.67 0.305127
Target:  5'- uGCcguUGGCGCGGcgGCaGCCguagcaCCGGCCu -3'
miRNA:   3'- -CGu--GCCGCGCCaaCG-CGGa-----GGUCGGc -5'
18713 3' -61.8 NC_004682.1 + 20090 0.68 0.277066
Target:  5'- uGC-CGGCcccgaugcuCGGgaGCGCCUCCAGgCGc -3'
miRNA:   3'- -CGuGCCGc--------GCCaaCGCGGAGGUCgGC- -5'
18713 3' -61.8 NC_004682.1 + 18569 0.68 0.263825
Target:  5'- aGCAUGGCG-GGcaGCGUCUCUGGCg- -3'
miRNA:   3'- -CGUGCCGCgCCaaCGCGGAGGUCGgc -5'
18713 3' -61.8 NC_004682.1 + 20559 0.69 0.232972
Target:  5'- -gACGGUguuccagacGCGGUUaGCGuCCUCCAGCg- -3'
miRNA:   3'- cgUGCCG---------CGCCAA-CGC-GGAGGUCGgc -5'
18713 3' -61.8 NC_004682.1 + 37071 0.7 0.215956
Target:  5'- gGCcUGGCGCauguccaucaGGUUGcCGaCCUCCAuGCCGg -3'
miRNA:   3'- -CGuGCCGCG----------CCAAC-GC-GGAGGU-CGGC- -5'
18713 3' -61.8 NC_004682.1 + 17701 0.7 0.205213
Target:  5'- cCACGGCGC---UGCaGCagaUCCAGCCGa -3'
miRNA:   3'- cGUGCCGCGccaACG-CGg--AGGUCGGC- -5'
18713 3' -61.8 NC_004682.1 + 4832 0.72 0.152473
Target:  5'- gGCuACGGCGUGGUcaugaacugggucGCGCCUCC-GUCGa -3'
miRNA:   3'- -CG-UGCCGCGCCAa------------CGCGGAGGuCGGC- -5'
18713 3' -61.8 NC_004682.1 + 30794 0.72 0.134905
Target:  5'- gGC-UGGUGCGGcgGUGCUUCCuGGCCGa -3'
miRNA:   3'- -CGuGCCGCGCCaaCGCGGAGG-UCGGC- -5'
18713 3' -61.8 NC_004682.1 + 41530 0.73 0.131341
Target:  5'- aCAUGGCGCGGUcgacgaGCGCCUgcguggUCGGCCu -3'
miRNA:   3'- cGUGCCGCGCCAa-----CGCGGA------GGUCGGc -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.