miRNA display CGI


Results 1 - 17 of 17 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
18673 3' -55.7 NC_004682.1 + 45916 0.66 0.708321
Target:  5'- gGGCUcGCC-GUCGuCcGGGUCCUGGUu -3'
miRNA:   3'- -CCGA-CGGcCAGCuGcUCUAGGACUAc -5'
18673 3' -55.7 NC_004682.1 + 38220 0.66 0.686755
Target:  5'- aGCUGCUcugGGUCGuucAUGAGAUCCUu--- -3'
miRNA:   3'- cCGACGG---CCAGC---UGCUCUAGGAcuac -5'
18673 3' -55.7 NC_004682.1 + 30795 0.67 0.64747
Target:  5'- uGGCUGgugcggcggugcuucCUGGcCGACGAGggCCaauUGAUGg -3'
miRNA:   3'- -CCGAC---------------GGCCaGCUGCUCuaGG---ACUAC- -5'
18673 3' -55.7 NC_004682.1 + 47354 0.67 0.632117
Target:  5'- uGGC-GCUGGcCGAgGAGAUCC-GAg- -3'
miRNA:   3'- -CCGaCGGCCaGCUgCUCUAGGaCUac -5'
18673 3' -55.7 NC_004682.1 + 5091 0.68 0.545139
Target:  5'- uGGCgcaCUGGUCGaACGAGAUCCa---- -3'
miRNA:   3'- -CCGac-GGCCAGC-UGCUCUAGGacuac -5'
18673 3' -55.7 NC_004682.1 + 37641 0.69 0.492698
Target:  5'- cGCccGCCGGUCGuggaACGGGAUCUgcgugucgcUGAUGa -3'
miRNA:   3'- cCGa-CGGCCAGC----UGCUCUAGG---------ACUAC- -5'
18673 3' -55.7 NC_004682.1 + 18894 0.69 0.492698
Target:  5'- -aCUGCCGGUCG-CGgAGA-CCUGGUc -3'
miRNA:   3'- ccGACGGCCAGCuGC-UCUaGGACUAc -5'
18673 3' -55.7 NC_004682.1 + 35304 0.7 0.462366
Target:  5'- cGCUGCCGuuggcucggauGUUGaucgacguguGCGAGAUCCUGAg- -3'
miRNA:   3'- cCGACGGC-----------CAGC----------UGCUCUAGGACUac -5'
18673 3' -55.7 NC_004682.1 + 20219 0.7 0.452474
Target:  5'- cGCUGUCGGUcagCGACGAGAccgCUUGGa- -3'
miRNA:   3'- cCGACGGCCA---GCUGCUCUa--GGACUac -5'
18673 3' -55.7 NC_004682.1 + 31998 0.7 0.452473
Target:  5'- cGGCUGCuCGGgCGGCGAGAcgagGAUGc -3'
miRNA:   3'- -CCGACG-GCCaGCUGCUCUaggaCUAC- -5'
18673 3' -55.7 NC_004682.1 + 20349 0.71 0.414108
Target:  5'- uGGCUGCCGuucucCGACGAGA-CCUGc-- -3'
miRNA:   3'- -CCGACGGCca---GCUGCUCUaGGACuac -5'
18673 3' -55.7 NC_004682.1 + 30267 0.72 0.335543
Target:  5'- cGcCUGCCGauccaCGACGAGAUCCUGGc- -3'
miRNA:   3'- cC-GACGGCca---GCUGCUCUAGGACUac -5'
18673 3' -55.7 NC_004682.1 + 8217 0.72 0.335542
Target:  5'- uGGCgUGCCGGgucgaUGACGGGAuguuguUCCUGAUc -3'
miRNA:   3'- -CCG-ACGGCCa----GCUGCUCU------AGGACUAc -5'
18673 3' -55.7 NC_004682.1 + 35860 0.73 0.31963
Target:  5'- cGGC-GCgUGGUCGACGGGAaCCUGGc- -3'
miRNA:   3'- -CCGaCG-GCCAGCUGCUCUaGGACUac -5'
18673 3' -55.7 NC_004682.1 + 41527 0.74 0.275322
Target:  5'- uGGCg--CGGUCGACGAGcgCCUGcGUGg -3'
miRNA:   3'- -CCGacgGCCAGCUGCUCuaGGAC-UAC- -5'
18673 3' -55.7 NC_004682.1 + 10794 0.77 0.162534
Target:  5'- cGGCUGCCGaGUCGucauCGAGGUCUaggccggcguUGGUGg -3'
miRNA:   3'- -CCGACGGC-CAGCu---GCUCUAGG----------ACUAC- -5'
18673 3' -55.7 NC_004682.1 + 7994 1.1 0.000803
Target:  5'- uGGCUGCCGGUCGACGAGAUCCUGAUGu -3'
miRNA:   3'- -CCGACGGCCAGCUGCUCUAGGACUAC- -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.