miRNA display CGI


Results 1 - 20 of 22 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
18384 3' -62.3 NC_004681.1 + 45200 0.66 0.442281
Target:  5'- -gCGucGGCCCCGGUCuuGAGCGa--- -3'
miRNA:   3'- caGCu-CCGGGGCCGGugCUCGCcaag -5'
18384 3' -62.3 NC_004681.1 + 6401 0.66 0.442281
Target:  5'- --gGAGGCCCCGGCgccgaaGCGAcCGGc-- -3'
miRNA:   3'- cagCUCCGGGGCCGg-----UGCUcGCCaag -5'
18384 3' -62.3 NC_004681.1 + 3051 0.66 0.44137
Target:  5'- cUCGGGGUCCucgcuggugaacuCGGCgCGCGuGGCGGUg- -3'
miRNA:   3'- cAGCUCCGGG-------------GCCG-GUGC-UCGCCAag -5'
18384 3' -62.3 NC_004681.1 + 62340 0.66 0.43322
Target:  5'- -aCGAGGCCCUGcGUUACGGcuucGUGGaUCg -3'
miRNA:   3'- caGCUCCGGGGC-CGGUGCU----CGCCaAG- -5'
18384 3' -62.3 NC_004681.1 + 1112 0.66 0.427835
Target:  5'- -aCGAGcGCCUCaaggccaucuacgaaGGCCGCGAGgGGgagUCc -3'
miRNA:   3'- caGCUC-CGGGG---------------CCGGUGCUCgCCa--AG- -5'
18384 3' -62.3 NC_004681.1 + 8242 0.66 0.424267
Target:  5'- -cCGAGGUCgaGGCgCACGAGCGcGcgCa -3'
miRNA:   3'- caGCUCCGGggCCG-GUGCUCGC-CaaG- -5'
18384 3' -62.3 NC_004681.1 + 68021 0.66 0.415426
Target:  5'- uUCG-GGCCucCCGGCaa-GAGCuGGUUCa -3'
miRNA:   3'- cAGCuCCGG--GGCCGgugCUCG-CCAAG- -5'
18384 3' -62.3 NC_004681.1 + 33515 0.66 0.415426
Target:  5'- -aUGAGGCCCgagccaaugucuUGGCgC-CGAuGCGGUUCa -3'
miRNA:   3'- caGCUCCGGG------------GCCG-GuGCU-CGCCAAG- -5'
18384 3' -62.3 NC_004681.1 + 20163 0.67 0.406699
Target:  5'- -aCGcuGCCCCGGCUGCGcuCGGUgaUCg -3'
miRNA:   3'- caGCucCGGGGCCGGUGCucGCCA--AG- -5'
18384 3' -62.3 NC_004681.1 + 29432 0.67 0.406699
Target:  5'- -gCGAGgucGCCUCGGgcaacggcuacaCCACGGGCGGUg- -3'
miRNA:   3'- caGCUC---CGGGGCC------------GGUGCUCGCCAag -5'
18384 3' -62.3 NC_004681.1 + 28009 0.67 0.406699
Target:  5'- -cCGAGGCCCCGcguGCCgcuacuggACGAGuUGGUg- -3'
miRNA:   3'- caGCUCCGGGGC---CGG--------UGCUC-GCCAag -5'
18384 3' -62.3 NC_004681.1 + 45081 0.67 0.403241
Target:  5'- gGUCGAGGCCCUcGCCGCGGucucgcucaagacCGGggCc -3'
miRNA:   3'- -CAGCUCCGGGGcCGGUGCUc------------GCCaaG- -5'
18384 3' -62.3 NC_004681.1 + 22387 0.67 0.398088
Target:  5'- cGUCGAGuGgacgcuggucaCCCCGGCCGCGGaCGGc-- -3'
miRNA:   3'- -CAGCUC-C-----------GGGGCCGGUGCUcGCCaag -5'
18384 3' -62.3 NC_004681.1 + 45683 0.67 0.389595
Target:  5'- --gGAGGCaCCGGCCACcuuGCGGg-- -3'
miRNA:   3'- cagCUCCGgGGCCGGUGcu-CGCCaag -5'
18384 3' -62.3 NC_004681.1 + 59417 0.67 0.381221
Target:  5'- -cCGGGGUCCUGGCCACGca-GGa-- -3'
miRNA:   3'- caGCUCCGGGGCCGGUGCucgCCaag -5'
18384 3' -62.3 NC_004681.1 + 44750 0.67 0.372969
Target:  5'- cGUCGAGGaCUCCc-UCGCGGGCGGcUUCa -3'
miRNA:   3'- -CAGCUCC-GGGGccGGUGCUCGCC-AAG- -5'
18384 3' -62.3 NC_004681.1 + 8642 0.67 0.362423
Target:  5'- cGUCGAaccgaagggguucuGGCCgaUGGCCGCGggGGCGGUcUCa -3'
miRNA:   3'- -CAGCU--------------CCGGg-GCCGGUGC--UCGCCA-AG- -5'
18384 3' -62.3 NC_004681.1 + 50961 0.69 0.304288
Target:  5'- uGUCGGGGUaCUCGGCgGCGAGgCGcUUCa -3'
miRNA:   3'- -CAGCUCCG-GGGCCGgUGCUC-GCcAAG- -5'
18384 3' -62.3 NC_004681.1 + 35488 0.69 0.297286
Target:  5'- cGUCGAGGaauCCGGCCACcGGUGGc-- -3'
miRNA:   3'- -CAGCUCCgg-GGCCGGUGcUCGCCaag -5'
18384 3' -62.3 NC_004681.1 + 6566 0.69 0.283658
Target:  5'- gGUCGGGGauaguCCCGGCaccgagGCGGGCGGa-- -3'
miRNA:   3'- -CAGCUCCg----GGGCCGg-----UGCUCGCCaag -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.