miRNA display CGI


Results 1 - 20 of 49 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
22586 5' -57.7 NC_005091.1 + 48640 0.66 0.580052
Target:  5'- uGGCGCgcaGGcCCGAUGAggaucgcuCGGGGCGGCc -3'
miRNA:   3'- uUCGUGa--CC-GGCUGUU--------GUUCCGCCGc -5'
22586 5' -57.7 NC_005091.1 + 810 0.66 0.580052
Target:  5'- -uGCGCUGcGCUGccGCGugGGuguacGGCGGCGa -3'
miRNA:   3'- uuCGUGAC-CGGC--UGUugUU-----CCGCCGC- -5'
22586 5' -57.7 NC_005091.1 + 55371 0.66 0.573543
Target:  5'- -uGCcgACUGGauGGCAACGAGGCgaccaaggaagucauGGCGg -3'
miRNA:   3'- uuCG--UGACCggCUGUUGUUCCG---------------CCGC- -5'
22586 5' -57.7 NC_005091.1 + 16820 0.66 0.56813
Target:  5'- gGAGCGugGGCCaaucacgggGACGACGuagcggccuuccuAGGCGGCGc -3'
miRNA:   3'- -UUCGUgaCCGG---------CUGUUGU-------------UCCGCCGC- -5'
22586 5' -57.7 NC_005091.1 + 30159 0.66 0.558423
Target:  5'- aAAGCGCUGGuCCGuCAgacuguccaugACAcucuGGCGGUa -3'
miRNA:   3'- -UUCGUGACC-GGCuGU-----------UGUu---CCGCCGc -5'
22586 5' -57.7 NC_005091.1 + 36439 0.66 0.547692
Target:  5'- gGGGCGuCUGGCUgaagGACGGCGAGucgaugaCGGCGg -3'
miRNA:   3'- -UUCGU-GACCGG----CUGUUGUUCc------GCCGC- -5'
22586 5' -57.7 NC_005091.1 + 4225 0.66 0.537027
Target:  5'- cGGCugUGGCaGAgGAUgAAGuGCGGCGu -3'
miRNA:   3'- uUCGugACCGgCUgUUG-UUC-CGCCGC- -5'
22586 5' -57.7 NC_005091.1 + 52087 0.66 0.537027
Target:  5'- -cGCAUUGGCgCGGCcguauGCcgugaaAAGGCGGCc -3'
miRNA:   3'- uuCGUGACCG-GCUGu----UG------UUCCGCCGc -5'
22586 5' -57.7 NC_005091.1 + 40636 0.66 0.526435
Target:  5'- cGGCGCgGGauaCCGACu-CGGcGGCGGCGa -3'
miRNA:   3'- uUCGUGaCC---GGCUGuuGUU-CCGCCGC- -5'
22586 5' -57.7 NC_005091.1 + 31781 0.67 0.515922
Target:  5'- cGGCACgagcaGGCCGcCGACGAGcGCGaCGa -3'
miRNA:   3'- uUCGUGa----CCGGCuGUUGUUC-CGCcGC- -5'
22586 5' -57.7 NC_005091.1 + 48818 0.67 0.515922
Target:  5'- -cGCGCUgcgccguacGGCCGAUGACAu-GCGGCc -3'
miRNA:   3'- uuCGUGA---------CCGGCUGUUGUucCGCCGc -5'
22586 5' -57.7 NC_005091.1 + 22178 0.67 0.505495
Target:  5'- -cGCGCaGGUCGGCAuuuuGCu-GGCGGCc -3'
miRNA:   3'- uuCGUGaCCGGCUGU----UGuuCCGCCGc -5'
22586 5' -57.7 NC_005091.1 + 28379 0.67 0.49516
Target:  5'- -cGCuCUGGuucaCCGGCAGCAAGGCGa-- -3'
miRNA:   3'- uuCGuGACC----GGCUGUUGUUCCGCcgc -5'
22586 5' -57.7 NC_005091.1 + 10341 0.67 0.484921
Target:  5'- aGAGUACUGcGCgugucgcgcgccCGACAuCGAGGaCGGCGc -3'
miRNA:   3'- -UUCGUGAC-CG------------GCUGUuGUUCC-GCCGC- -5'
22586 5' -57.7 NC_005091.1 + 52383 0.67 0.477815
Target:  5'- cAGCACUGGCCGcugucgaaucgauccGCAACGcacacuaAGG-GGCu -3'
miRNA:   3'- uUCGUGACCGGC---------------UGUUGU-------UCCgCCGc -5'
22586 5' -57.7 NC_005091.1 + 31093 0.67 0.474785
Target:  5'- cGGCGCUcaCCGuGCAACugacGGGCGGCGc -3'
miRNA:   3'- uUCGUGAccGGC-UGUUGu---UCCGCCGC- -5'
22586 5' -57.7 NC_005091.1 + 4822 0.67 0.474785
Target:  5'- -cGCGCUcGGCgCGGCGGCAAcGGUcaagcgGGCGa -3'
miRNA:   3'- uuCGUGA-CCG-GCUGUUGUU-CCG------CCGC- -5'
22586 5' -57.7 NC_005091.1 + 55099 0.67 0.474785
Target:  5'- uAAGCACgaggGGUCGuCAGCAcGGGauacCGGCGg -3'
miRNA:   3'- -UUCGUGa---CCGGCuGUUGU-UCC----GCCGC- -5'
22586 5' -57.7 NC_005091.1 + 27540 0.67 0.464756
Target:  5'- gAAGCACUGGCCGAUGuguuuGCAAcGGagcugucuuucuCGGUGc -3'
miRNA:   3'- -UUCGUGACCGGCUGU-----UGUU-CC------------GCCGC- -5'
22586 5' -57.7 NC_005091.1 + 17336 0.67 0.464756
Target:  5'- uAGCGCUGGCCGuuCAGCuucAGauugccCGGCGg -3'
miRNA:   3'- uUCGUGACCGGCu-GUUGu--UCc-----GCCGC- -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.