miRNA display CGI


Results 1 - 20 of 59 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
12996 3' -50.5 NC_003387.1 + 724 0.66 0.901124
Target:  5'- gGCCGAcAGGUCgGGCAGguGCGCCagGAu -3'
miRNA:   3'- -CGGCUuUUCAG-UCGUU--UGCGGgaCUc -5'
12996 3' -50.5 NC_003387.1 + 1560 0.67 0.861987
Target:  5'- gGCCccGAGGaCGGCGAagcgccuaACGCCCUGGc -3'
miRNA:   3'- -CGGcuUUUCaGUCGUU--------UGCGGGACUc -5'
12996 3' -50.5 NC_003387.1 + 1581 0.75 0.475782
Target:  5'- cGUCGuGAAAGUCAGac-GCGCCCUGGc -3'
miRNA:   3'- -CGGC-UUUUCAGUCguuUGCGGGACUc -5'
12996 3' -50.5 NC_003387.1 + 2168 0.67 0.893858
Target:  5'- aGCCGc-GAG-CAGCucGGCGCCUUGGu -3'
miRNA:   3'- -CGGCuuUUCaGUCGu-UUGCGGGACUc -5'
12996 3' -50.5 NC_003387.1 + 2374 0.67 0.870363
Target:  5'- cUUGAGcguGGUCGGCuaccgcAACGCCCUGGc -3'
miRNA:   3'- cGGCUUu--UCAGUCGu-----UUGCGGGACUc -5'
12996 3' -50.5 NC_003387.1 + 2578 0.66 0.908099
Target:  5'- cGCCGAcccGUCGGUcGACGCCUg--- -3'
miRNA:   3'- -CGGCUuuuCAGUCGuUUGCGGGacuc -5'
12996 3' -50.5 NC_003387.1 + 2752 0.67 0.893858
Target:  5'- uGuuGAGGuGUCAacaCAAACGCCCcGAGu -3'
miRNA:   3'- -CggCUUUuCAGUc--GUUUGCGGGaCUC- -5'
12996 3' -50.5 NC_003387.1 + 6623 0.75 0.444714
Target:  5'- aGCCGGAAcauGUCGGCGGcCGUCUUGGGc -3'
miRNA:   3'- -CGGCUUUu--CAGUCGUUuGCGGGACUC- -5'
12996 3' -50.5 NC_003387.1 + 7166 0.68 0.844466
Target:  5'- uGCCGAcGAGcuggCGGCGGAuCGCCUUGc- -3'
miRNA:   3'- -CGGCUuUUCa---GUCGUUU-GCGGGACuc -5'
12996 3' -50.5 NC_003387.1 + 7441 0.67 0.870363
Target:  5'- aCCGAgugAAGGUCGGCGAgaACGCgaUGGGc -3'
miRNA:   3'- cGGCU---UUUCAGUCGUU--UGCGggACUC- -5'
12996 3' -50.5 NC_003387.1 + 7522 0.66 0.927245
Target:  5'- gGCCGAgggugaacgAGAG-CGGCAcugcugcCGCCCUGGc -3'
miRNA:   3'- -CGGCU---------UUUCaGUCGUuu-----GCGGGACUc -5'
12996 3' -50.5 NC_003387.1 + 8779 0.67 0.886305
Target:  5'- cGCCGugcGG-CGGCGGGCGaCCUGAu -3'
miRNA:   3'- -CGGCuuuUCaGUCGUUUGCgGGACUc -5'
12996 3' -50.5 NC_003387.1 + 9412 0.67 0.896799
Target:  5'- cGCCGAGGAGUgGGCcgacgaguacgacgcGGGCGCCgaGc- -3'
miRNA:   3'- -CGGCUUUUCAgUCG---------------UUUGCGGgaCuc -5'
12996 3' -50.5 NC_003387.1 + 9671 0.67 0.893858
Target:  5'- gGCgGugcGGGGUCAGCu--CGCCCgucuUGAGg -3'
miRNA:   3'- -CGgCu--UUUCAGUCGuuuGCGGG----ACUC- -5'
12996 3' -50.5 NC_003387.1 + 10094 0.66 0.908099
Target:  5'- gGUCGgcAAGUUcauGGCAAuGCGCgCUGAGc -3'
miRNA:   3'- -CGGCuuUUCAG---UCGUU-UGCGgGACUC- -5'
12996 3' -50.5 NC_003387.1 + 11546 0.68 0.835338
Target:  5'- cGCCGAAAcGGUgcgacCGGCcgcacuCGCCCUGAc -3'
miRNA:   3'- -CGGCUUU-UCA-----GUCGuuu---GCGGGACUc -5'
12996 3' -50.5 NC_003387.1 + 13406 0.66 0.908099
Target:  5'- gGCCGAcgguuAAGUCGGCGcuCGCCggugUGAa -3'
miRNA:   3'- -CGGCUu----UUCAGUCGUuuGCGGg---ACUc -5'
12996 3' -50.5 NC_003387.1 + 13668 0.69 0.780264
Target:  5'- cGCCGAGGGcgccgucgacgcuauGUCGGCGuuCGUCCcGAGc -3'
miRNA:   3'- -CGGCUUUU---------------CAGUCGUuuGCGGGaCUC- -5'
12996 3' -50.5 NC_003387.1 + 13893 0.67 0.893115
Target:  5'- cGCCGGGcagguucGAcGUCGGguGGCGCCCg--- -3'
miRNA:   3'- -CGGCUU-------UU-CAGUCguUUGCGGGacuc -5'
12996 3' -50.5 NC_003387.1 + 14811 0.71 0.654476
Target:  5'- uGCCGAGccacgcGGG-CAGCGGGuCGCCCUcGGGg -3'
miRNA:   3'- -CGGCUU------UUCaGUCGUUU-GCGGGA-CUC- -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.