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
23303 3' -59.1 NC_005259.1 + 32514 0.66 0.582744
Target:  5'- cGUgaGGUAGUCGAGGcgggcggcaggcUUGaccuugcuguuggccGCCCCGGCg -3'
miRNA:   3'- -UAgaCCGUCAGCUCC------------AGC---------------UGGGGCUG- -5'
23303 3' -59.1 NC_005259.1 + 5418 0.66 0.568048
Target:  5'- -gCUGGCcgccacGUCGAGGUCugcgcccgcuGCCgCCGACa -3'
miRNA:   3'- uaGACCGu-----CAGCUCCAGc---------UGG-GGCUG- -5'
23303 3' -59.1 NC_005259.1 + 41305 0.66 0.547223
Target:  5'- gAUCcgUGaGCg--CGAGGUCGACCUCGAa -3'
miRNA:   3'- -UAG--AC-CGucaGCUCCAGCUGGGGCUg -5'
23303 3' -59.1 NC_005259.1 + 26690 0.66 0.547223
Target:  5'- cAUCgaGGCGGggaacUCGGGGUUGAuuuCCUCGACc -3'
miRNA:   3'- -UAGa-CCGUC-----AGCUCCAGCU---GGGGCUG- -5'
23303 3' -59.1 NC_005259.1 + 68730 0.66 0.547223
Target:  5'- -aCUGG-GGUcgccgcuugcCGAGcUCGACCCCGGCg -3'
miRNA:   3'- uaGACCgUCA----------GCUCcAGCUGGGGCUG- -5'
23303 3' -59.1 NC_005259.1 + 49586 0.67 0.506365
Target:  5'- ---cGGCGGgCGGGGUCaGcACCUCGACc -3'
miRNA:   3'- uagaCCGUCaGCUCCAG-C-UGGGGCUG- -5'
23303 3' -59.1 NC_005259.1 + 67212 0.68 0.457239
Target:  5'- -gCUGuCGG-CGGGGUCGAUgCCGACc -3'
miRNA:   3'- uaGACcGUCaGCUCCAGCUGgGGCUG- -5'
23303 3' -59.1 NC_005259.1 + 39922 0.68 0.44772
Target:  5'- cGUCgagGGCcgcGUCGAGGUCGuCCUuggUGACg -3'
miRNA:   3'- -UAGa--CCGu--CAGCUCCAGCuGGG---GCUG- -5'
23303 3' -59.1 NC_005259.1 + 29364 0.68 0.419842
Target:  5'- cGUCgaGGCAcccGUCGAGGUCuACCcgCCGACc -3'
miRNA:   3'- -UAGa-CCGU---CAGCUCCAGcUGG--GGCUG- -5'
23303 3' -59.1 NC_005259.1 + 38680 0.69 0.401851
Target:  5'- -gUUGGCcgccgGGUCGAGGUUGGCCaCCugaGACu -3'
miRNA:   3'- uaGACCG-----UCAGCUCCAGCUGG-GG---CUG- -5'
23303 3' -59.1 NC_005259.1 + 8737 0.69 0.401851
Target:  5'- uGUCaGGCAgucagcccGUCGAGGUCGAggcCCuuGGCc -3'
miRNA:   3'- -UAGaCCGU--------CAGCUCCAGCU---GGggCUG- -5'
23303 3' -59.1 NC_005259.1 + 10769 0.69 0.393041
Target:  5'- uGUCgGGCGGgucaUCGAGGUgGGCCgCGAg -3'
miRNA:   3'- -UAGaCCGUC----AGCUCCAgCUGGgGCUg -5'
23303 3' -59.1 NC_005259.1 + 57959 0.69 0.375802
Target:  5'- --aUGGCccccauGGUCGAGGUCGccgggaucgugACCCCGGu -3'
miRNA:   3'- uagACCG------UCAGCUCCAGC-----------UGGGGCUg -5'
23303 3' -59.1 NC_005259.1 + 65729 0.69 0.367376
Target:  5'- ---aGGCgAGUUGGGGUCGACCCauugGAUc -3'
miRNA:   3'- uagaCCG-UCAGCUCCAGCUGGGg---CUG- -5'
23303 3' -59.1 NC_005259.1 + 17371 0.71 0.312101
Target:  5'- ---cGGCgcuGGUCGuGGUCGACUgCGACa -3'
miRNA:   3'- uagaCCG---UCAGCuCCAGCUGGgGCUG- -5'
23303 3' -59.1 NC_005259.1 + 64219 0.71 0.311359
Target:  5'- gGUC-GGCAGcccgguaUCGGGGUCGAUagCCGACg -3'
miRNA:   3'- -UAGaCCGUC-------AGCUCCAGCUGg-GGCUG- -5'
23303 3' -59.1 NC_005259.1 + 61032 0.72 0.269937
Target:  5'- --gUGGCGG-CGAGGUCGACCgaCgGGCg -3'
miRNA:   3'- uagACCGUCaGCUCCAGCUGG--GgCUG- -5'
23303 3' -59.1 NC_005259.1 + 36430 0.72 0.263372
Target:  5'- gGUCUGcGCAGcgucgcCGAGGUCGACCgCGuCg -3'
miRNA:   3'- -UAGAC-CGUCa-----GCUCCAGCUGGgGCuG- -5'
23303 3' -59.1 NC_005259.1 + 32785 0.73 0.210017
Target:  5'- --gUGGCAcccgagucGUagccCGAGGUCGAUCCCGACg -3'
miRNA:   3'- uagACCGU--------CA----GCUCCAGCUGGGGCUG- -5'
23303 3' -59.1 NC_005259.1 + 22097 0.74 0.179841
Target:  5'- --aUGGCGGgcaccauuuUCGAGGUCGACCCCu-- -3'
miRNA:   3'- uagACCGUC---------AGCUCCAGCUGGGGcug -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.