miRNA display CGI


Results 1 - 20 of 32 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
19672 5' -66.7 NC_004686.1 + 24448 1.05 0.000142
Target:  5'- aAGCGCUGCGGCGGCGGCCGCCACCAUg -3'
miRNA:   3'- -UCGCGACGCCGCCGCCGGCGGUGGUA- -5'
19672 5' -66.7 NC_004686.1 + 31729 0.74 0.047616
Target:  5'- aGGUGUcgGUggucucgacauGGUGGCGGCCGCCGCCGc -3'
miRNA:   3'- -UCGCGa-CG-----------CCGCCGCCGGCGGUGGUa -5'
19672 5' -66.7 NC_004686.1 + 22249 0.72 0.069859
Target:  5'- gGGCGCUggcgguaaggGCGGCGGCGGCaaGCUGuCCAa -3'
miRNA:   3'- -UCGCGA----------CGCCGCCGCCGg-CGGU-GGUa -5'
19672 5' -66.7 NC_004686.1 + 12459 0.71 0.086761
Target:  5'- uGGCGCgGCGGCccagguuGCGuGCCGCgACCAa -3'
miRNA:   3'- -UCGCGaCGCCGc------CGC-CGGCGgUGGUa -5'
19672 5' -66.7 NC_004686.1 + 26246 0.7 0.094053
Target:  5'- gGGuCGgUGUGGCGGCGGCuUGCCgAUCAg -3'
miRNA:   3'- -UC-GCgACGCCGCCGCCG-GCGG-UGGUa -5'
19672 5' -66.7 NC_004686.1 + 19790 0.7 0.104681
Target:  5'- ---uCUGCGGUGGUggaGGUCGCCACCGa -3'
miRNA:   3'- ucgcGACGCCGCCG---CCGGCGGUGGUa -5'
19672 5' -66.7 NC_004686.1 + 16863 0.7 0.10751
Target:  5'- cAGUGUUGCGuuGGCGGCCGgcaaCACUAUu -3'
miRNA:   3'- -UCGCGACGCcgCCGCCGGCg---GUGGUA- -5'
19672 5' -66.7 NC_004686.1 + 29588 0.69 0.113384
Target:  5'- cGgGCUGCGGUucgaucGGCGGgUGCuCGCCAg -3'
miRNA:   3'- uCgCGACGCCG------CCGCCgGCG-GUGGUa -5'
19672 5' -66.7 NC_004686.1 + 7003 0.69 0.113384
Target:  5'- uGGUGgUGUGGUGGCGuucgaggaaGCCGCCGCgAa -3'
miRNA:   3'- -UCGCgACGCCGCCGC---------CGGCGGUGgUa -5'
19672 5' -66.7 NC_004686.1 + 51519 0.69 0.113384
Target:  5'- gGGCGUggaucGCGGCGugggacGCGcucaacGCCGCCACCAa -3'
miRNA:   3'- -UCGCGa----CGCCGC------CGC------CGGCGGUGGUa -5'
19672 5' -66.7 NC_004686.1 + 5106 0.69 0.113384
Target:  5'- cAGC-CUcGCGGCGGaCGagaauGCCGCCGCUAUg -3'
miRNA:   3'- -UCGcGA-CGCCGCC-GC-----CGGCGGUGGUA- -5'
19672 5' -66.7 NC_004686.1 + 40506 0.69 0.12604
Target:  5'- cGGCcuGCUGCuGCGGCGucaGCCggGCCACCGc -3'
miRNA:   3'- -UCG--CGACGcCGCCGC---CGG--CGGUGGUa -5'
19672 5' -66.7 NC_004686.1 + 52891 0.69 0.126041
Target:  5'- gGGCGCcaggaucaUGCGGCGcaUGGCuCGCCGCCu- -3'
miRNA:   3'- -UCGCG--------ACGCCGCc-GCCG-GCGGUGGua -5'
19672 5' -66.7 NC_004686.1 + 7279 0.68 0.136379
Target:  5'- cGGCGagaaggGCGGCGGCcagauuccguGcGCCGuCCGCCGUg -3'
miRNA:   3'- -UCGCga----CGCCGCCG----------C-CGGC-GGUGGUA- -5'
19672 5' -66.7 NC_004686.1 + 3780 0.68 0.139995
Target:  5'- aAGCGCUGaGGUGGcCGGCCGguucuCCGCgAUc -3'
miRNA:   3'- -UCGCGACgCCGCC-GCCGGC-----GGUGgUA- -5'
19672 5' -66.7 NC_004686.1 + 22749 0.68 0.147109
Target:  5'- cGGCGCcGCGGCuaucgcggucaccGGUGGUCaGCCcACCAUc -3'
miRNA:   3'- -UCGCGaCGCCG-------------CCGCCGG-CGG-UGGUA- -5'
19672 5' -66.7 NC_004686.1 + 29935 0.68 0.151376
Target:  5'- cAGUGCU-CGGCcugaucGGCaaGCCGCCGCCAc -3'
miRNA:   3'- -UCGCGAcGCCG------CCGc-CGGCGGUGGUa -5'
19672 5' -66.7 NC_004686.1 + 48889 0.67 0.154951
Target:  5'- cAGgGCUacgccacGCGGaCGGCgcacggaaucuGGCCGCCGCCc- -3'
miRNA:   3'- -UCgCGA-------CGCC-GCCG-----------CCGGCGGUGGua -5'
19672 5' -66.7 NC_004686.1 + 6363 0.67 0.155353
Target:  5'- cAGcCGUUGCGGCGuGCGGUgucugCGUCGCuCAUg -3'
miRNA:   3'- -UC-GCGACGCCGC-CGCCG-----GCGGUG-GUA- -5'
19672 5' -66.7 NC_004686.1 + 28771 0.67 0.163591
Target:  5'- uGCGCggguuuuaUGCGGCGG-GuGUCGCCGCgGUg -3'
miRNA:   3'- uCGCG--------ACGCCGCCgC-CGGCGGUGgUA- -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.