miRNA display CGI


Results 1 - 16 of 16 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
18648 3' -55.8 NC_004682.1 + 15822 0.66 0.679009
Target:  5'- aGGacCAGg-GCGAGCUuGGGGGAgaGGCGg -3'
miRNA:   3'- gCC--GUCaaUGCUCGGuCCUCCU--UCGC- -5'
18648 3' -55.8 NC_004682.1 + 2319 0.66 0.679009
Target:  5'- uCGGCccUUGCGGGCCGGuGGGAccuGCu -3'
miRNA:   3'- -GCCGucAAUGCUCGGUCcUCCUu--CGc -5'
18648 3' -55.8 NC_004682.1 + 38435 0.66 0.668034
Target:  5'- gCGGaCGGggACGAGCCGGGGcu--GCa -3'
miRNA:   3'- -GCC-GUCaaUGCUCGGUCCUccuuCGc -5'
18648 3' -55.8 NC_004682.1 + 33547 0.66 0.63495
Target:  5'- gCGGCGGcaacgGCGgcAGCCGGGGuGGuGGCa -3'
miRNA:   3'- -GCCGUCaa---UGC--UCGGUCCU-CCuUCGc -5'
18648 3' -55.8 NC_004682.1 + 38988 0.66 0.633845
Target:  5'- gGGCAGc-GCGguGGCgaucaucaaggaaCAGGAGGAGGUGa -3'
miRNA:   3'- gCCGUCaaUGC--UCG-------------GUCCUCCUUCGC- -5'
18648 3' -55.8 NC_004682.1 + 26759 0.67 0.623904
Target:  5'- gGGCAag-GCGAuCCuGGAGGAcauGGCGg -3'
miRNA:   3'- gCCGUcaaUGCUcGGuCCUCCU---UCGC- -5'
18648 3' -55.8 NC_004682.1 + 29960 0.67 0.623904
Target:  5'- uCGGCAGgucugGCGGGagCGGGuGGAgaAGCa -3'
miRNA:   3'- -GCCGUCaa---UGCUCg-GUCCuCCU--UCGc -5'
18648 3' -55.8 NC_004682.1 + 24469 0.67 0.579883
Target:  5'- aGGUugaAGUUcGCGuucGCCGGGAcguuGGAGGCGa -3'
miRNA:   3'- gCCG---UCAA-UGCu--CGGUCCU----CCUUCGC- -5'
18648 3' -55.8 NC_004682.1 + 21585 0.68 0.558099
Target:  5'- gGGCGGUgaguCGAuGCCAGGcgucaacGAGGCGa -3'
miRNA:   3'- gCCGUCAau--GCU-CGGUCCuc-----CUUCGC- -5'
18648 3' -55.8 NC_004682.1 + 39763 0.68 0.558099
Target:  5'- gCGGcCAGUUccggaucaGCGAGCaucCAGGAguGGAAGCc -3'
miRNA:   3'- -GCC-GUCAA--------UGCUCG---GUCCU--CCUUCGc -5'
18648 3' -55.8 NC_004682.1 + 38516 0.68 0.547293
Target:  5'- aCGGUGG--GCGuGCCAGGAGcacAGGCGu -3'
miRNA:   3'- -GCCGUCaaUGCuCGGUCCUCc--UUCGC- -5'
18648 3' -55.8 NC_004682.1 + 413 0.68 0.546215
Target:  5'- gCGGCuccucggAGggcCGAGCCAGGGnGAGGCc -3'
miRNA:   3'- -GCCG-------UCaauGCUCGGUCCUcCUUCGc -5'
18648 3' -55.8 NC_004682.1 + 45790 0.69 0.453827
Target:  5'- uGGCAGgagaucuuCGucGGCgAGGAGGGAGCc -3'
miRNA:   3'- gCCGUCaau-----GC--UCGgUCCUCCUUCGc -5'
18648 3' -55.8 NC_004682.1 + 16682 0.7 0.396552
Target:  5'- gCGGCAGcggugAUGGGCCuGGAGGGcuCGg -3'
miRNA:   3'- -GCCGUCaa---UGCUCGGuCCUCCUucGC- -5'
18648 3' -55.8 NC_004682.1 + 27778 0.71 0.352524
Target:  5'- aGGUgAGUUGCG-GCCAGGAGccacAGCGg -3'
miRNA:   3'- gCCG-UCAAUGCuCGGUCCUCcu--UCGC- -5'
18648 3' -55.8 NC_004682.1 + 773 1.09 0.000747
Target:  5'- gCGGCAGUUACGAGCCAGGAGGAAGCGa -3'
miRNA:   3'- -GCCGUCAAUGCUCGGUCCUCCUUCGC- -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.