miRNA display CGI


Results 1 - 16 of 16 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
16645 3' -51.3 NC_004156.1 + 149270 0.66 0.99779
Target:  5'- uGUAGaaGGUGguGUCGGUGUACgAGGAg -3'
miRNA:   3'- -CGUUggCCAU--CAGCCACGUGaUCUUg -5'
16645 3' -51.3 NC_004156.1 + 136460 0.66 0.99779
Target:  5'- gGCAAagaCGGUAcGUCuGGUG-ACUAGGAa -3'
miRNA:   3'- -CGUUg--GCCAU-CAG-CCACgUGAUCUUg -5'
16645 3' -51.3 NC_004156.1 + 125931 0.66 0.997383
Target:  5'- cGCAGagUGGUAGUUGaugacgGCACUGGGAUc -3'
miRNA:   3'- -CGUUg-GCCAUCAGCca----CGUGAUCUUG- -5'
16645 3' -51.3 NC_004156.1 + 205616 0.66 0.996383
Target:  5'- uGCGAUCGGUAcaCgGGUGCACagaUGGAGg -3'
miRNA:   3'- -CGUUGGCCAUcaG-CCACGUG---AUCUUg -5'
16645 3' -51.3 NC_004156.1 + 104323 0.67 0.995775
Target:  5'- uGCAACCGagGGaUCGGUGCGCa----- -3'
miRNA:   3'- -CGUUGGCcaUC-AGCCACGUGaucuug -5'
16645 3' -51.3 NC_004156.1 + 44703 0.67 0.995775
Target:  5'- aGCAgauGCCGGUGcuugaGGUGCugUgcacAGAGCu -3'
miRNA:   3'- -CGU---UGGCCAUcag--CCACGugA----UCUUG- -5'
16645 3' -51.3 NC_004156.1 + 134386 0.67 0.995775
Target:  5'- uGCAAgaguaUGGU-GUCGGUGCACUu--GCg -3'
miRNA:   3'- -CGUUg----GCCAuCAGCCACGUGAucuUG- -5'
16645 3' -51.3 NC_004156.1 + 206054 0.67 0.993438
Target:  5'- uGCAucggagaguACCGGcacUGGUacCGGUGCugucACUGGAGCc -3'
miRNA:   3'- -CGU---------UGGCC---AUCA--GCCACG----UGAUCUUG- -5'
16645 3' -51.3 NC_004156.1 + 136552 0.67 0.993438
Target:  5'- -aGACCGGgugacgAGUCGGgGCACauUAGAc- -3'
miRNA:   3'- cgUUGGCCa-----UCAGCCaCGUG--AUCUug -5'
16645 3' -51.3 NC_004156.1 + 44708 0.68 0.991372
Target:  5'- gGCGACCGGUGccGUaccaGGcGC-CUAGGAUg -3'
miRNA:   3'- -CGUUGGCCAU--CAg---CCaCGuGAUCUUG- -5'
16645 3' -51.3 NC_004156.1 + 213954 0.68 0.991372
Target:  5'- gGCAGCgaagAGUCGGUGUugUacaAGAGCg -3'
miRNA:   3'- -CGUUGgccaUCAGCCACGugA---UCUUG- -5'
16645 3' -51.3 NC_004156.1 + 286 0.68 0.987346
Target:  5'- aGCAACCGGUAGaguagcaccaCaGUGCAgugUAGAACa -3'
miRNA:   3'- -CGUUGGCCAUCa---------GcCACGUg--AUCUUG- -5'
16645 3' -51.3 NC_004156.1 + 169659 0.69 0.97513
Target:  5'- cCAGuCCaGGUAGUCGGUGUAUUuaAACa -3'
miRNA:   3'- cGUU-GG-CCAUCAGCCACGUGAucUUG- -5'
16645 3' -51.3 NC_004156.1 + 191231 0.7 0.966509
Target:  5'- cGCaAACUGGUGGUCG-UGCACgauGAGg -3'
miRNA:   3'- -CG-UUGGCCAUCAGCcACGUGau-CUUg -5'
16645 3' -51.3 NC_004156.1 + 184121 0.74 0.840312
Target:  5'- gGCGAUCGGUAGU--GUGCugUGGAAg -3'
miRNA:   3'- -CGUUGGCCAUCAgcCACGugAUCUUg -5'
16645 3' -51.3 NC_004156.1 + 103310 1.13 0.006955
Target:  5'- uGCAACCGGUAGUCGGUGCACUAGAACg -3'
miRNA:   3'- -CGUUGGCCAUCAGCCACGUGAUCUUG- -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.