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
12647 5' -55.7 NC_003345.1 + 73439 0.66 0.797954
Target:  5'- uGCCGACUCGAugGAguGa--UACCGg -3'
miRNA:   3'- -UGGCUGGGCUugCUguCcugAUGGUa -5'
12647 5' -55.7 NC_003345.1 + 13743 0.66 0.787479
Target:  5'- -aCGACCUGAggaagaagaacaaGCGGauuacguGGGACUACCAg -3'
miRNA:   3'- ugGCUGGGCU-------------UGCUg------UCCUGAUGGUa -5'
12647 5' -55.7 NC_003345.1 + 33332 0.66 0.768953
Target:  5'- uCCGACUCGAuuACGACGGcGugUuCCGc -3'
miRNA:   3'- uGGCUGGGCU--UGCUGUC-CugAuGGUa -5'
12647 5' -55.7 NC_003345.1 + 32489 0.66 0.759004
Target:  5'- aGCC-ACCCGAGCGACcucGGACU-CgAUa -3'
miRNA:   3'- -UGGcUGGGCUUGCUGu--CCUGAuGgUA- -5'
12647 5' -55.7 NC_003345.1 + 41470 0.66 0.748931
Target:  5'- -aCGACCUGAgaaGCGAguGGACUcuccccgacgACCGa -3'
miRNA:   3'- ugGCUGGGCU---UGCUguCCUGA----------UGGUa -5'
12647 5' -55.7 NC_003345.1 + 42737 0.67 0.738745
Target:  5'- cCCGACCCGcAgGACGGGucaauuagccGCUcACCAg -3'
miRNA:   3'- uGGCUGGGCuUgCUGUCC----------UGA-UGGUa -5'
12647 5' -55.7 NC_003345.1 + 77449 0.68 0.686493
Target:  5'- uCCGaggguacaaGCCCGAGCGACgggggacagGGGACggggGCCGg -3'
miRNA:   3'- uGGC---------UGGGCUUGCUG---------UCCUGa---UGGUa -5'
12647 5' -55.7 NC_003345.1 + 162 0.68 0.686493
Target:  5'- uCCGaggguacaaGCCCGAGCGACgggggacagGGGACggggGCCGg -3'
miRNA:   3'- uGGC---------UGGGCUUGCUG---------UCCUGa---UGGUa -5'
12647 5' -55.7 NC_003345.1 + 23974 0.68 0.675852
Target:  5'- uCCGGCCCc-ACGuCGGGAC-ACCAUa -3'
miRNA:   3'- uGGCUGGGcuUGCuGUCCUGaUGGUA- -5'
12647 5' -55.7 NC_003345.1 + 32345 0.68 0.654462
Target:  5'- -gUGACCCGAcuCGAUGGGACUcgaacGCCGg -3'
miRNA:   3'- ugGCUGGGCUu-GCUGUCCUGA-----UGGUa -5'
12647 5' -55.7 NC_003345.1 + 26709 0.68 0.643732
Target:  5'- -aCGACCCGAagGCGGCGGGuCgaguugacGCCAa -3'
miRNA:   3'- ugGCUGGGCU--UGCUGUCCuGa-------UGGUa -5'
12647 5' -55.7 NC_003345.1 + 64395 0.68 0.632993
Target:  5'- cCCGGCCCGAACGGgGGcGACaACg-- -3'
miRNA:   3'- uGGCUGGGCUUGCUgUC-CUGaUGgua -5'
12647 5' -55.7 NC_003345.1 + 32748 0.69 0.621179
Target:  5'- -aCGACCUGAugGACgcuuggaAGGAC-ACCAa -3'
miRNA:   3'- ugGCUGGGCUugCUG-------UCCUGaUGGUa -5'
12647 5' -55.7 NC_003345.1 + 22980 0.69 0.600806
Target:  5'- -aCGGCCCGAACGGUGGGACguugaauCCGg -3'
miRNA:   3'- ugGCUGGGCUUGCUGUCCUGau-----GGUa -5'
12647 5' -55.7 NC_003345.1 + 3543 0.7 0.568846
Target:  5'- cCCGACCUuuGCGACcgAGGugUGCCu- -3'
miRNA:   3'- uGGCUGGGcuUGCUG--UCCugAUGGua -5'
12647 5' -55.7 NC_003345.1 + 7270 0.7 0.547772
Target:  5'- aGCCGuuCCGAACGAgcgagauuCAGGAgcUUACCAUa -3'
miRNA:   3'- -UGGCugGGCUUGCU--------GUCCU--GAUGGUA- -5'
12647 5' -55.7 NC_003345.1 + 16979 0.73 0.383116
Target:  5'- uUCGACCCGAACGAgAGGAacagcacGCCGa -3'
miRNA:   3'- uGGCUGGGCUUGCUgUCCUga-----UGGUa -5'
12647 5' -55.7 NC_003345.1 + 57815 0.74 0.34128
Target:  5'- -aCGACCCGAACGAUAGucUUGCCGa -3'
miRNA:   3'- ugGCUGGGCUUGCUGUCcuGAUGGUa -5'
12647 5' -55.7 NC_003345.1 + 27689 0.77 0.236164
Target:  5'- aACUGGCCCGAGCG-CAGGGCggugACUAc -3'
miRNA:   3'- -UGGCUGGGCUUGCuGUCCUGa---UGGUa -5'
12647 5' -55.7 NC_003345.1 + 6017 0.79 0.170122
Target:  5'- cCCGAggacuggaugggaaaCCCGGACGGCAGaGACUACCAc -3'
miRNA:   3'- uGGCU---------------GGGCUUGCUGUC-CUGAUGGUa -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.