miRNA display CGI


Results 1 - 20 of 107 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
23572 3' -53.9 NC_005261.1 + 51865 0.69 0.856493
Target:  5'- gGAGCGcUGC-GACGCGGGc-GCCUuCg -3'
miRNA:   3'- gCUCGC-ACGaCUGCGUCCauUGGAuG- -5'
23572 3' -53.9 NC_005261.1 + 46147 0.7 0.777266
Target:  5'- gGGGCGUGCgcGACGCGcGUGugCUGu -3'
miRNA:   3'- gCUCGCACGa-CUGCGUcCAUugGAUg -5'
23572 3' -53.9 NC_005261.1 + 29850 0.7 0.777266
Target:  5'- gGAGCGcgcggGCgcgGACGCGGGcagggaugcGCCUGCg -3'
miRNA:   3'- gCUCGCa----CGa--CUGCGUCCau-------UGGAUG- -5'
23572 3' -53.9 NC_005261.1 + 87816 0.7 0.805235
Target:  5'- aCGAGCGgcccGC-GACGCGGGgcuGCCgGCc -3'
miRNA:   3'- -GCUCGCa---CGaCUGCGUCCau-UGGaUG- -5'
23572 3' -53.9 NC_005261.1 + 43243 0.69 0.814241
Target:  5'- aGGGCGggGCgcGCGCGGG--GCCUACg -3'
miRNA:   3'- gCUCGCa-CGacUGCGUCCauUGGAUG- -5'
23572 3' -53.9 NC_005261.1 + 72027 0.69 0.814241
Target:  5'- -cGGCGUGCUGGCGCuggccgacucggAGGcgGACgUGCc -3'
miRNA:   3'- gcUCGCACGACUGCG------------UCCa-UUGgAUG- -5'
23572 3' -53.9 NC_005261.1 + 44088 0.69 0.823073
Target:  5'- cCGGGC--GCUGACGCuGGUgGACgUGCa -3'
miRNA:   3'- -GCUCGcaCGACUGCGuCCA-UUGgAUG- -5'
23572 3' -53.9 NC_005261.1 + 66970 0.69 0.831722
Target:  5'- gCGcGCGUGCUGcucgGCGCGGGgcucGgCUGCg -3'
miRNA:   3'- -GCuCGCACGAC----UGCGUCCau--UgGAUG- -5'
23572 3' -53.9 NC_005261.1 + 83712 0.69 0.856493
Target:  5'- uGGcGCGU-CUGACGCcgucgccggAGGgcGCCUGCg -3'
miRNA:   3'- gCU-CGCAcGACUGCG---------UCCauUGGAUG- -5'
23572 3' -53.9 NC_005261.1 + 83986 0.7 0.777266
Target:  5'- aGGGCGcGCUGcacaugagcgcGCGCcGcGUGACCUGCg -3'
miRNA:   3'- gCUCGCaCGAC-----------UGCGuC-CAUUGGAUG- -5'
23572 3' -53.9 NC_005261.1 + 76105 0.71 0.738109
Target:  5'- -----cUGCUGACGCAGG--GCCUGCa -3'
miRNA:   3'- gcucgcACGACUGCGUCCauUGGAUG- -5'
23572 3' -53.9 NC_005261.1 + 34834 0.71 0.738109
Target:  5'- gGAGC-UGgaGGCGCAGGcGGCCgcgGCg -3'
miRNA:   3'- gCUCGcACgaCUGCGUCCaUUGGa--UG- -5'
23572 3' -53.9 NC_005261.1 + 38583 0.79 0.331784
Target:  5'- -cAGCGUGCUGGCGCgcaugugcaucccGGGcGACCUGCu -3'
miRNA:   3'- gcUCGCACGACUGCG-------------UCCaUUGGAUG- -5'
23572 3' -53.9 NC_005261.1 + 136128 0.75 0.510952
Target:  5'- aGGGCGUGCUgcugcucgcGACGCGGGaccUGGCCUuccGCg -3'
miRNA:   3'- gCUCGCACGA---------CUGCGUCC---AUUGGA---UG- -5'
23572 3' -53.9 NC_005261.1 + 43172 0.73 0.6243
Target:  5'- gCGGGCGUGCaUGGCGgAGGgcggUCUGCg -3'
miRNA:   3'- -GCUCGCACG-ACUGCgUCCauu-GGAUG- -5'
23572 3' -53.9 NC_005261.1 + 87883 0.72 0.670404
Target:  5'- aCGGGCGcggccuaccggcggcUGCUGGUGCAGGUGgaaaGCUUGCa -3'
miRNA:   3'- -GCUCGC---------------ACGACUGCGUCCAU----UGGAUG- -5'
23572 3' -53.9 NC_005261.1 + 16387 0.72 0.687053
Target:  5'- gCGGGC-UGCUGGCGCcGGUGcgccGCCgcgGCg -3'
miRNA:   3'- -GCUCGcACGACUGCGuCCAU----UGGa--UG- -5'
23572 3' -53.9 NC_005261.1 + 35116 0.71 0.717908
Target:  5'- cCGGGCGcGCUGGCGCcgGGGgcGCUgGCc -3'
miRNA:   3'- -GCUCGCaCGACUGCG--UCCauUGGaUG- -5'
23572 3' -53.9 NC_005261.1 + 86932 0.71 0.717908
Target:  5'- -cGGCGUGCgcGAgGUAGGUGGCCgcgGCc -3'
miRNA:   3'- gcUCGCACGa-CUgCGUCCAUUGGa--UG- -5'
23572 3' -53.9 NC_005261.1 + 79310 0.71 0.732086
Target:  5'- -cGGCGUGCgcgGGCGCGcuGGUGcgcgcgcuggcgcgcGCCUGCg -3'
miRNA:   3'- gcUCGCACGa--CUGCGU--CCAU---------------UGGAUG- -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.