miRNA display CGI


Results 1 - 20 of 72 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
11140 3' -61.1 NC_002794.1 + 627 0.69 0.597618
Target:  5'- cCGGUGUgGCgUUCG-CCUCC-CGUCc -3'
miRNA:   3'- cGCCACGgCGgAAGCgGGAGGaGCAG- -5'
11140 3' -61.1 NC_002794.1 + 8215 0.67 0.694303
Target:  5'- uGCGG-GCC-CCgucccccUCGUCCucgUCCUCGUCc -3'
miRNA:   3'- -CGCCaCGGcGGa------AGCGGG---AGGAGCAG- -5'
11140 3' -61.1 NC_002794.1 + 11816 0.71 0.449486
Target:  5'- cGCcGUcGCCGCCUUCGCUCccccCCUCGcCg -3'
miRNA:   3'- -CGcCA-CGGCGGAAGCGGGa---GGAGCaG- -5'
11140 3' -61.1 NC_002794.1 + 21376 0.69 0.578345
Target:  5'- gGCGGcgGCCGCCgUC-UCUUCCUCGg- -3'
miRNA:   3'- -CGCCa-CGGCGGaAGcGGGAGGAGCag -5'
11140 3' -61.1 NC_002794.1 + 31346 0.69 0.579306
Target:  5'- cGCcGUGuCCGCCgcccgcucgucgaagUCGUCCUCCUCcccGUCg -3'
miRNA:   3'- -CGcCAC-GGCGGa--------------AGCGGGAGGAG---CAG- -5'
11140 3' -61.1 NC_002794.1 + 31394 0.68 0.65578
Target:  5'- gGCGGccCCGCCgcgcccgccgCGCCCgccgCCUuCGUCg -3'
miRNA:   3'- -CGCCacGGCGGaa--------GCGGGa---GGA-GCAG- -5'
11140 3' -61.1 NC_002794.1 + 40353 0.72 0.440864
Target:  5'- gGCGGcGCCGCCUcUCG-UCUCCUCuUCa -3'
miRNA:   3'- -CGCCaCGGCGGA-AGCgGGAGGAGcAG- -5'
11140 3' -61.1 NC_002794.1 + 41381 0.68 0.652874
Target:  5'- cGCGGcGCCuCCUUCGgcggccccgauuucCCCgucucgcgacUCCUCGUCg -3'
miRNA:   3'- -CGCCaCGGcGGAAGC--------------GGG----------AGGAGCAG- -5'
11140 3' -61.1 NC_002794.1 + 41673 0.67 0.72273
Target:  5'- uCGG-GCCGCCgcaggagCGCCCggaccgCCggaUCGUCc -3'
miRNA:   3'- cGCCaCGGCGGaa-----GCGGGa-----GG---AGCAG- -5'
11140 3' -61.1 NC_002794.1 + 49162 0.66 0.774831
Target:  5'- aGCGG-GCCGuCCgggaggccgagcccaCGgCCUUCUCGUCc -3'
miRNA:   3'- -CGCCaCGGC-GGaa-------------GCgGGAGGAGCAG- -5'
11140 3' -61.1 NC_002794.1 + 50734 0.66 0.750527
Target:  5'- cCGGggcgGCCGCC-UCGa-CUCgCUCGUCc -3'
miRNA:   3'- cGCCa---CGGCGGaAGCggGAG-GAGCAG- -5'
11140 3' -61.1 NC_002794.1 + 52902 0.73 0.383279
Target:  5'- cGCGGcGCCGCCgccgUCGCCg-CCgcCGUCg -3'
miRNA:   3'- -CGCCaCGGCGGa---AGCGGgaGGa-GCAG- -5'
11140 3' -61.1 NC_002794.1 + 53422 0.67 0.713314
Target:  5'- aGCGGc-CCGCuCUcgcUCGCCCUCC-CGcUCu -3'
miRNA:   3'- -CGCCacGGCG-GA---AGCGGGAGGaGC-AG- -5'
11140 3' -61.1 NC_002794.1 + 55530 0.69 0.597618
Target:  5'- cCGGcgGCC-CCgUCGCCCUCC-CGUUu -3'
miRNA:   3'- cGCCa-CGGcGGaAGCGGGAGGaGCAG- -5'
11140 3' -61.1 NC_002794.1 + 55668 0.74 0.338061
Target:  5'- aUGGUGCgCGCCUUCuGCCCguggaaggCCUCGa- -3'
miRNA:   3'- cGCCACG-GCGGAAG-CGGGa-------GGAGCag -5'
11140 3' -61.1 NC_002794.1 + 56589 0.68 0.616982
Target:  5'- cGCGGcGcCCGCCgcCGgCCUCCUCa-- -3'
miRNA:   3'- -CGCCaC-GGCGGaaGCgGGAGGAGcag -5'
11140 3' -61.1 NC_002794.1 + 60222 0.67 0.713314
Target:  5'- cGCGacGCCGCCgagcgCGCCCUCUaCGa- -3'
miRNA:   3'- -CGCcaCGGCGGaa---GCGGGAGGaGCag -5'
11140 3' -61.1 NC_002794.1 + 62507 0.67 0.684723
Target:  5'- gGCGGcGCCGCCggCGCC-UCCgcccacCGUg -3'
miRNA:   3'- -CGCCaCGGCGGaaGCGGgAGGa-----GCAg -5'
11140 3' -61.1 NC_002794.1 + 63340 0.66 0.768604
Target:  5'- cGCGGaccgGUCGC--UCGCCCUCUcgcuccCGUCg -3'
miRNA:   3'- -CGCCa---CGGCGgaAGCGGGAGGa-----GCAG- -5'
11140 3' -61.1 NC_002794.1 + 63478 0.67 0.684723
Target:  5'- gGCGGcgGCCGCCgucgacgaCGCCgCggCgUCGUCg -3'
miRNA:   3'- -CGCCa-CGGCGGaa------GCGG-Ga-GgAGCAG- -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.