miRNA display CGI


Results 1 - 20 of 40 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
18569 5' -54.2 NC_004682.1 + 49433 0.66 0.774607
Target:  5'- aGUCGCGAccGCGCCagagGACCAGCgAg -3'
miRNA:   3'- -CGGUGCUucUGCGGaca-CUGGUUGgU- -5'
18569 5' -54.2 NC_004682.1 + 27429 0.66 0.76333
Target:  5'- cGCCAccuaccuCGAAuGCGCCaGUGccgaGCCAGCCu -3'
miRNA:   3'- -CGGU-------GCUUcUGCGGaCAC----UGGUUGGu -5'
18569 5' -54.2 NC_004682.1 + 30748 0.66 0.758147
Target:  5'- cGCCGCuGGgcagcgucugagccgGGAUGCCgGUGAUCGACa- -3'
miRNA:   3'- -CGGUG-CU---------------UCUGCGGaCACUGGUUGgu -5'
18569 5' -54.2 NC_004682.1 + 40084 0.66 0.753978
Target:  5'- cGCC-CGAgAGGCGCUgUGUGGCCcGCa- -3'
miRNA:   3'- -CGGuGCU-UCUGCGG-ACACUGGuUGgu -5'
18569 5' -54.2 NC_004682.1 + 30717 0.66 0.753978
Target:  5'- cGCUugGAucaACGgCUGUGGCaGACCGg -3'
miRNA:   3'- -CGGugCUuc-UGCgGACACUGgUUGGU- -5'
18569 5' -54.2 NC_004682.1 + 39852 0.66 0.743467
Target:  5'- aGCCGCGAacgGGACGaUCUGaucgGACaGGCCGu -3'
miRNA:   3'- -CGGUGCU---UCUGC-GGACa---CUGgUUGGU- -5'
18569 5' -54.2 NC_004682.1 + 23428 0.66 0.743467
Target:  5'- cGCCgACGgcGAuugugcCGCCcGUGGCCAcCCGu -3'
miRNA:   3'- -CGG-UGCuuCU------GCGGaCACUGGUuGGU- -5'
18569 5' -54.2 NC_004682.1 + 37844 0.66 0.743467
Target:  5'- gGCCACGucGAUGUCguUGAUCGGCUg -3'
miRNA:   3'- -CGGUGCuuCUGCGGacACUGGUUGGu -5'
18569 5' -54.2 NC_004682.1 + 24601 0.66 0.743467
Target:  5'- aGCuCGCGGAcGGCaCCgagGUGACCuACCGg -3'
miRNA:   3'- -CG-GUGCUU-CUGcGGa--CACUGGuUGGU- -5'
18569 5' -54.2 NC_004682.1 + 16162 0.66 0.73284
Target:  5'- gGCgACGuucuCGCCUGUGGCaGACCc -3'
miRNA:   3'- -CGgUGCuucuGCGGACACUGgUUGGu -5'
18569 5' -54.2 NC_004682.1 + 10583 0.66 0.73284
Target:  5'- cGCUGCGAGcgcucGACGCaCUGggcauUGACCAgGCCGu -3'
miRNA:   3'- -CGGUGCUU-----CUGCG-GAC-----ACUGGU-UGGU- -5'
18569 5' -54.2 NC_004682.1 + 10616 0.66 0.73284
Target:  5'- uUCGCGGguGGGCGCgaGUGGCCAcuggucgagagACCu -3'
miRNA:   3'- cGGUGCU--UCUGCGgaCACUGGU-----------UGGu -5'
18569 5' -54.2 NC_004682.1 + 48229 0.66 0.722109
Target:  5'- uGCCGuuCGAggacgGGACGCCUGcugGACCcuguGGCCc -3'
miRNA:   3'- -CGGU--GCU-----UCUGCGGACa--CUGG----UUGGu -5'
18569 5' -54.2 NC_004682.1 + 40362 0.66 0.722109
Target:  5'- aCCGCGAAGccuCGCUg--GGCCAGCUc -3'
miRNA:   3'- cGGUGCUUCu--GCGGacaCUGGUUGGu -5'
18569 5' -54.2 NC_004682.1 + 19517 0.66 0.718872
Target:  5'- aCgACGAAGGCGCacauCUGgacgaagguggagcUGACCAACCc -3'
miRNA:   3'- cGgUGCUUCUGCG----GAC--------------ACUGGUUGGu -5'
18569 5' -54.2 NC_004682.1 + 16544 0.67 0.711288
Target:  5'- gGCUGCGccagcaggacAAGAC-CCUGacGGCCAACCAg -3'
miRNA:   3'- -CGGUGC----------UUCUGcGGACa-CUGGUUGGU- -5'
18569 5' -54.2 NC_004682.1 + 5392 0.67 0.711288
Target:  5'- uGCUuCGAccGCgGCCUgGUGACCGACCc -3'
miRNA:   3'- -CGGuGCUucUG-CGGA-CACUGGUUGGu -5'
18569 5' -54.2 NC_004682.1 + 10493 0.67 0.700386
Target:  5'- cCCAgGAGGAgGCCgGUGACgCAGgCGu -3'
miRNA:   3'- cGGUgCUUCUgCGGaCACUG-GUUgGU- -5'
18569 5' -54.2 NC_004682.1 + 45380 0.67 0.685012
Target:  5'- gGCCGCGccGAUGCCggcccacuucaGAUCGGCCAg -3'
miRNA:   3'- -CGGUGCuuCUGCGGaca--------CUGGUUGGU- -5'
18569 5' -54.2 NC_004682.1 + 23509 0.67 0.682807
Target:  5'- aGCUGCGAAGACaGUCugucgcaacuguacuUGUcucGGCCAGCCGa -3'
miRNA:   3'- -CGGUGCUUCUG-CGG---------------ACA---CUGGUUGGU- -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.