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
24412 3' -50.4 NC_005264.1 + 103363 0.66 0.996556
Target:  5'- gGAAGUAcaUGCCagucgucauGCCUGcCGCGCGGg -3'
miRNA:   3'- gCUUUAUc-ACGG---------UGGAUuGCGCGUCa -5'
24412 3' -50.4 NC_005264.1 + 131260 0.66 0.996556
Target:  5'- -----aAGUGcCCGCCgUAACuGCGCGGg -3'
miRNA:   3'- gcuuuaUCAC-GGUGG-AUUG-CGCGUCa -5'
24412 3' -50.4 NC_005264.1 + 71941 0.66 0.995262
Target:  5'- gGAGAUcGUGCC-CCcAACGC-CGGUa -3'
miRNA:   3'- gCUUUAuCACGGuGGaUUGCGcGUCA- -5'
24412 3' -50.4 NC_005264.1 + 122503 0.66 0.995262
Target:  5'- gGcGAUGGgcuUGCCGCCgcACGCgGCGGg -3'
miRNA:   3'- gCuUUAUC---ACGGUGGauUGCG-CGUCa -5'
24412 3' -50.4 NC_005264.1 + 3476 0.66 0.995262
Target:  5'- gGcGAUGGgcuUGCCGCCgcACGCgGCGGg -3'
miRNA:   3'- gCuUUAUC---ACGGUGGauUGCG-CGUCa -5'
24412 3' -50.4 NC_005264.1 + 126286 0.66 0.99448
Target:  5'- gGAGGcGGccaUGCCGCUUucgGGCGCGCGGc -3'
miRNA:   3'- gCUUUaUC---ACGGUGGA---UUGCGCGUCa -5'
24412 3' -50.4 NC_005264.1 + 66490 0.66 0.99448
Target:  5'- uGAGucccGUGCCGgCgAugGCGCGGUa -3'
miRNA:   3'- gCUUuau-CACGGUgGaUugCGCGUCA- -5'
24412 3' -50.4 NC_005264.1 + 137 0.66 0.994397
Target:  5'- -----cGGcgGCCGCCUuaacgccGGCGCGCAGc -3'
miRNA:   3'- gcuuuaUCa-CGGUGGA-------UUGCGCGUCa -5'
24412 3' -50.4 NC_005264.1 + 119164 0.66 0.994397
Target:  5'- -----cGGcgGCCGCCUuaacgccGGCGCGCAGc -3'
miRNA:   3'- gcuuuaUCa-CGGUGGA-------UUGCGCGUCa -5'
24412 3' -50.4 NC_005264.1 + 67883 0.66 0.993597
Target:  5'- gGGAAUGGgccgcgagGcCCACCaccGACGCGUAGa -3'
miRNA:   3'- gCUUUAUCa-------C-GGUGGa--UUGCGCGUCa -5'
24412 3' -50.4 NC_005264.1 + 76337 0.66 0.993597
Target:  5'- aCGAAAguugGCCGCgCggcgacuGCGCGCAGg -3'
miRNA:   3'- -GCUUUaucaCGGUG-Gau-----UGCGCGUCa -5'
24412 3' -50.4 NC_005264.1 + 103132 0.66 0.993597
Target:  5'- -----cGGUaGCCGCCggcgcGGCGCGCGGc -3'
miRNA:   3'- gcuuuaUCA-CGGUGGa----UUGCGCGUCa -5'
24412 3' -50.4 NC_005264.1 + 141572 0.67 0.992605
Target:  5'- gGAGAUGGcguuaCCACCUccgcGGCGCGCAc- -3'
miRNA:   3'- gCUUUAUCac---GGUGGA----UUGCGCGUca -5'
24412 3' -50.4 NC_005264.1 + 121120 0.67 0.992605
Target:  5'- -------cUGCCGCCUGGCGCGagaAGa -3'
miRNA:   3'- gcuuuaucACGGUGGAUUGCGCg--UCa -5'
24412 3' -50.4 NC_005264.1 + 82832 0.67 0.991493
Target:  5'- cCGAGAU-GUGCCgcGCCUccucuucCGCGCGGc -3'
miRNA:   3'- -GCUUUAuCACGG--UGGAuu-----GCGCGUCa -5'
24412 3' -50.4 NC_005264.1 + 117270 0.67 0.990253
Target:  5'- gCGGucucGUGCCACCUAucguACGCGUg-- -3'
miRNA:   3'- -GCUuuauCACGGUGGAU----UGCGCGuca -5'
24412 3' -50.4 NC_005264.1 + 129262 0.67 0.988876
Target:  5'- cCGAAcAUGGcuccGCUACCUcGCGCGCAa- -3'
miRNA:   3'- -GCUU-UAUCa---CGGUGGAuUGCGCGUca -5'
24412 3' -50.4 NC_005264.1 + 97279 0.67 0.987352
Target:  5'- --cGGUAGUgGCCGCUgccuCGCGCAGc -3'
miRNA:   3'- gcuUUAUCA-CGGUGGauu-GCGCGUCa -5'
24412 3' -50.4 NC_005264.1 + 67002 0.68 0.986364
Target:  5'- aCGGcg-AGUGCUGCCUGGacggagcggcggccuUGCGCAGg -3'
miRNA:   3'- -GCUuuaUCACGGUGGAUU---------------GCGCGUCa -5'
24412 3' -50.4 NC_005264.1 + 59902 0.68 0.985672
Target:  5'- gCGGGccAGUGC--CCUGugGCGCAGa -3'
miRNA:   3'- -GCUUuaUCACGguGGAUugCGCGUCa -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.