miRNA display CGI


Results 1 - 18 of 18 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
33080 3' -62.7 NC_007497.1 + 34650 0.66 0.289639
Target:  5'- gGUCGcGCaaaCGGCGGCCgccCG-CGCAGGc -3'
miRNA:   3'- -UAGCuCGa--GCCGCCGGa--GCgGCGUCU- -5'
33080 3' -62.7 NC_007497.1 + 10169 0.66 0.282617
Target:  5'- -cCGAGC--GGCaGCCUgCGCgCGCAGAu -3'
miRNA:   3'- uaGCUCGagCCGcCGGA-GCG-GCGUCU- -5'
33080 3' -62.7 NC_007497.1 + 24613 0.66 0.275731
Target:  5'- -cUGGGCaguuaUCGGaCGGCCuUCGCCGCc-- -3'
miRNA:   3'- uaGCUCG-----AGCC-GCCGG-AGCGGCGucu -5'
33080 3' -62.7 NC_007497.1 + 35946 0.66 0.26898
Target:  5'- -aCGAGCUgaUGGauGCCgaaCGCCGCGGc -3'
miRNA:   3'- uaGCUCGA--GCCgcCGGa--GCGGCGUCu -5'
33080 3' -62.7 NC_007497.1 + 2295 0.66 0.262363
Target:  5'- --aGGGCUCgaaguaccuGGCGGCCU-GCCGUGGc -3'
miRNA:   3'- uagCUCGAG---------CCGCCGGAgCGGCGUCu -5'
33080 3' -62.7 NC_007497.1 + 14791 0.66 0.262362
Target:  5'- cGUCGccgacuGCUCGGCGGCaaaUGaCCGCGGc -3'
miRNA:   3'- -UAGCu-----CGAGCCGCCGga-GC-GGCGUCu -5'
33080 3' -62.7 NC_007497.1 + 44388 0.67 0.231248
Target:  5'- -cCGGuuuGCUcCGGCGGCaC-CGCCGCGGu -3'
miRNA:   3'- uaGCU---CGA-GCCGCCG-GaGCGGCGUCu -5'
33080 3' -62.7 NC_007497.1 + 32874 0.68 0.2197
Target:  5'- uUCGAGCU-GGuCGGCCUC-CgCGCGGu -3'
miRNA:   3'- uAGCUCGAgCC-GCCGGAGcG-GCGUCu -5'
33080 3' -62.7 NC_007497.1 + 191 0.68 0.2197
Target:  5'- gGUCGAGCUgGaGCcGUCugUCGCCGCGGu -3'
miRNA:   3'- -UAGCUCGAgC-CGcCGG--AGCGGCGUCu -5'
33080 3' -62.7 NC_007497.1 + 33893 0.68 0.207032
Target:  5'- cUCGAcguacuuguuccacGCuUCGGCGGCCaugcCGCCGCgaAGAa -3'
miRNA:   3'- uAGCU--------------CG-AGCCGCCGGa---GCGGCG--UCU- -5'
33080 3' -62.7 NC_007497.1 + 28875 0.68 0.192971
Target:  5'- uUCGAugauGCUCGGCGGUgUCG-CGCAa- -3'
miRNA:   3'- uAGCU----CGAGCCGCCGgAGCgGCGUcu -5'
33080 3' -62.7 NC_007497.1 + 32636 0.69 0.187979
Target:  5'- gAUCGGaCUUGGCGcGUCU-GCCGCAGGu -3'
miRNA:   3'- -UAGCUcGAGCCGC-CGGAgCGGCGUCU- -5'
33080 3' -62.7 NC_007497.1 + 20353 0.69 0.169134
Target:  5'- uGUCGuGCUCGGUcGCCcaucgCGCCGCGu- -3'
miRNA:   3'- -UAGCuCGAGCCGcCGGa----GCGGCGUcu -5'
33080 3' -62.7 NC_007497.1 + 28292 0.7 0.140197
Target:  5'- uUCGc-UUCGGCGuGCCUgCGCUGCAGAa -3'
miRNA:   3'- uAGCucGAGCCGC-CGGA-GCGGCGUCU- -5'
33080 3' -62.7 NC_007497.1 + 32252 0.73 0.092899
Target:  5'- gAUCGAGggCGGaaCGGCCgacgCGUCGCAGAu -3'
miRNA:   3'- -UAGCUCgaGCC--GCCGGa---GCGGCGUCU- -5'
33080 3' -62.7 NC_007497.1 + 34837 0.73 0.085455
Target:  5'- cUCGAGCUCGcccugcgcggccGCGGUCUCGCgCGCGa- -3'
miRNA:   3'- uAGCUCGAGC------------CGCCGGAGCG-GCGUcu -5'
33080 3' -62.7 NC_007497.1 + 37825 0.79 0.029039
Target:  5'- -gCGAGUUCGGCGGCCcaaUCGCCGUAc- -3'
miRNA:   3'- uaGCUCGAGCCGCCGG---AGCGGCGUcu -5'
33080 3' -62.7 NC_007497.1 + 36618 1.06 0.000225
Target:  5'- gAUCGAGCUCGGCGGCCUCGCCGCAGAc -3'
miRNA:   3'- -UAGCUCGAGCCGCCGGAGCGGCGUCU- -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.