miRNA display CGI


Results 1 - 20 of 36 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
12019 5' -54.8 NC_003278.1 + 8249 0.67 0.569205
Target:  5'- gGGCGCaGA-CGAaGGCagagaaagccagguUGGU-CAGCCa -3'
miRNA:   3'- -CCGCGaCUaGCUaCCG--------------ACCAuGUCGG- -5'
12019 5' -54.8 NC_003278.1 + 4302 0.66 0.583842
Target:  5'- cGGCGCuacUGAggggCGA-GGgUGGgcgGCAGCa -3'
miRNA:   3'- -CCGCG---ACUa---GCUaCCgACCa--UGUCGg -5'
12019 5' -54.8 NC_003278.1 + 28835 0.66 0.595152
Target:  5'- cGGcCGCgucAUCGAUGaacauccagcGCUGGUGCAgGUCg -3'
miRNA:   3'- -CC-GCGac-UAGCUAC----------CGACCAUGU-CGG- -5'
12019 5' -54.8 NC_003278.1 + 14334 0.66 0.640628
Target:  5'- aGCGCUGG-CGAaucaGCuUGGUcugaGCGGCCg -3'
miRNA:   3'- cCGCGACUaGCUac--CG-ACCA----UGUCGG- -5'
12019 5' -54.8 NC_003278.1 + 22916 0.68 0.484993
Target:  5'- uGGCGUcgGAcUCGuUGGcCUGGUcCAGCUg -3'
miRNA:   3'- -CCGCGa-CU-AGCuACC-GACCAuGUCGG- -5'
12019 5' -54.8 NC_003278.1 + 31204 0.68 0.494555
Target:  5'- gGGCGCUGggCGccaggcggGUGuuuguccGCUGGgccaggGCGGCCu -3'
miRNA:   3'- -CCGCGACuaGC--------UAC-------CGACCa-----UGUCGG- -5'
12019 5' -54.8 NC_003278.1 + 5742 0.72 0.270757
Target:  5'- cGGCGC-GGUUGGUGGUagccgcggcgcUGGUGCcguugaAGCCg -3'
miRNA:   3'- -CCGCGaCUAGCUACCG-----------ACCAUG------UCGG- -5'
12019 5' -54.8 NC_003278.1 + 2345 0.72 0.300476
Target:  5'- aGUGCUGGcCGAacgGGCggUGGUACgAGCCg -3'
miRNA:   3'- cCGCGACUaGCUa--CCG--ACCAUG-UCGG- -5'
12019 5' -54.8 NC_003278.1 + 9089 0.71 0.349664
Target:  5'- aGGCGCUGGUgcucGGC-GGUGCcGCCg -3'
miRNA:   3'- -CCGCGACUAgcuaCCGaCCAUGuCGG- -5'
12019 5' -54.8 NC_003278.1 + 25638 0.7 0.404321
Target:  5'- gGGCaUUGAUUGAaugGGCUuucGGUcGCAGCCg -3'
miRNA:   3'- -CCGcGACUAGCUa--CCGA---CCA-UGUCGG- -5'
12019 5' -54.8 NC_003278.1 + 17444 0.69 0.443627
Target:  5'- aGGCGCgcaguugcUGggCGAUGGCgaUGaGUGCGGUa -3'
miRNA:   3'- -CCGCG--------ACuaGCUACCG--AC-CAUGUCGg -5'
12019 5' -54.8 NC_003278.1 + 6778 0.67 0.56136
Target:  5'- cGGC-CUGGUCGGUGaGCaggagGGUGCGauGCa -3'
miRNA:   3'- -CCGcGACUAGCUAC-CGa----CCAUGU--CGg -5'
12019 5' -54.8 NC_003278.1 + 9771 0.71 0.325197
Target:  5'- gGGCGCUGuugcagccggCGAgcaacaucaggcagaGGCUGGU-CAGCCc -3'
miRNA:   3'- -CCGCGACua--------GCUa--------------CCGACCAuGUCGG- -5'
12019 5' -54.8 NC_003278.1 + 35500 0.67 0.528113
Target:  5'- gGGCGCUGc-UGGUGGCUuucUGCGGCg -3'
miRNA:   3'- -CCGCGACuaGCUACCGAcc-AUGUCGg -5'
12019 5' -54.8 NC_003278.1 + 4838 0.69 0.437594
Target:  5'- uGGCGCUGAaggagagcgccUCGGUacccaGGCUGGcgggggagucggugAUGGCCa -3'
miRNA:   3'- -CCGCGACU-----------AGCUA-----CCGACCa-------------UGUCGG- -5'
12019 5' -54.8 NC_003278.1 + 23067 0.71 0.321924
Target:  5'- cGGUGCUGGUCGccauccUGGCgGGUgagguugaugugcgGCAGCg -3'
miRNA:   3'- -CCGCGACUAGCu-----ACCGaCCA--------------UGUCGg -5'
12019 5' -54.8 NC_003278.1 + 3731 0.75 0.201204
Target:  5'- aGGCGCUGAUCGAcGcGCUGGaaacGgGGCg -3'
miRNA:   3'- -CCGCGACUAGCUaC-CGACCa---UgUCGg -5'
12019 5' -54.8 NC_003278.1 + 8024 0.68 0.495623
Target:  5'- uGGCGCcggccgUGG-CGGUGGUggugaGGU-CAGCCa -3'
miRNA:   3'- -CCGCG------ACUaGCUACCGa----CCAuGUCGG- -5'
12019 5' -54.8 NC_003278.1 + 22452 0.67 0.572575
Target:  5'- cGGCGUcgcgcugcaacUGGUCGAcgGcGCUGGUcaggUAGCCc -3'
miRNA:   3'- -CCGCG-----------ACUAGCUa-C-CGACCAu---GUCGG- -5'
12019 5' -54.8 NC_003278.1 + 27764 0.66 0.617864
Target:  5'- --gGCUGAgaaguaccugCucUGGCUGGU-CAGCCa -3'
miRNA:   3'- ccgCGACUa---------GcuACCGACCAuGUCGG- -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.