miRNA display CGI


Results 1 - 20 of 29 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
18303 3' -56.4 NC_004681.1 + 2974 0.71 0.474614
Target:  5'- gCGGGAGgggGGcuucgucacggucgAGCGcCUCGggGAcggugaccguguaGCGGCg -3'
miRNA:   3'- -GCCCUCa--CU--------------UCGC-GAGCuuCU-------------CGCCG- -5'
18303 3' -56.4 NC_004681.1 + 5927 0.68 0.644587
Target:  5'- uCGGGGcUGAGGCGCUUcucgugccgcaGuaccagguuGGGGCGGCc -3'
miRNA:   3'- -GCCCUcACUUCGCGAG-----------Cu--------UCUCGCCG- -5'
18303 3' -56.4 NC_004681.1 + 7408 0.73 0.367946
Target:  5'- cCGGGGGUGGAacgucgcuggcguGCaGCUCGucGcaGGCGGCg -3'
miRNA:   3'- -GCCCUCACUU-------------CG-CGAGCuuC--UCGCCG- -5'
18303 3' -56.4 NC_004681.1 + 16596 0.66 0.768671
Target:  5'- uGGGAGUuccAGuUGC-CGggGcGCGGCg -3'
miRNA:   3'- gCCCUCAcu-UC-GCGaGCuuCuCGCCG- -5'
18303 3' -56.4 NC_004681.1 + 16670 0.66 0.728534
Target:  5'- cCGGGGGcuUGuAGCGCUCGu----CGGCa -3'
miRNA:   3'- -GCCCUC--ACuUCGCGAGCuucucGCCG- -5'
18303 3' -56.4 NC_004681.1 + 18297 0.67 0.66477
Target:  5'- cCGGGGGUgcgccggGAGGCGCUCcaggaccgccagGGAGAGUaGGa -3'
miRNA:   3'- -GCCCUCA-------CUUCGCGAG------------CUUCUCG-CCg -5'
18303 3' -56.4 NC_004681.1 + 22605 0.71 0.448577
Target:  5'- gCGGGAGUucccgauacguccGAGGCGC-CGAugauGGUGGCg -3'
miRNA:   3'- -GCCCUCA-------------CUUCGCGaGCUuc--UCGCCG- -5'
18303 3' -56.4 NC_004681.1 + 25054 0.66 0.738729
Target:  5'- cCGGGGGUGAacuggaugaugcGGgGCcgucgaagUCGAcgccgcgcagaAGGGUGGCa -3'
miRNA:   3'- -GCCCUCACU------------UCgCG--------AGCU-----------UCUCGCCG- -5'
18303 3' -56.4 NC_004681.1 + 27462 0.66 0.727509
Target:  5'- cCGGGGuuccgccGuUGAGGgucaGCUCGAaugGGGGCGGUg -3'
miRNA:   3'- -GCCCU-------C-ACUUCg---CGAGCU---UCUCGCCG- -5'
18303 3' -56.4 NC_004681.1 + 31000 0.68 0.659466
Target:  5'- uGGGcgcacaacuacgacuGGUGcAAGCGCaacgCGGAcAGCGGCa -3'
miRNA:   3'- gCCC---------------UCAC-UUCGCGa---GCUUcUCGCCG- -5'
18303 3' -56.4 NC_004681.1 + 33662 1.12 0.000725
Target:  5'- gCGGGAGUGAAGCGCUCGAAGAGCGGCg -3'
miRNA:   3'- -GCCCUCACUUCGCGAGCUUCUCGCCG- -5'
18303 3' -56.4 NC_004681.1 + 36252 0.68 0.655218
Target:  5'- aCGGGAGcUGu-GCGCcgaaacCGAAGAcgagaagugGCGGCg -3'
miRNA:   3'- -GCCCUC-ACuuCGCGa-----GCUUCU---------CGCCG- -5'
18303 3' -56.4 NC_004681.1 + 36373 0.69 0.590389
Target:  5'- aCGGcGGGUGGguGGCGCacugCGAAGAccucccaGUGGCc -3'
miRNA:   3'- -GCC-CUCACU--UCGCGa---GCUUCU-------CGCCG- -5'
18303 3' -56.4 NC_004681.1 + 40547 0.68 0.606289
Target:  5'- aGGGAGUGGAGCcacucaccgagcgucGC-CGAGGcaaaCGGCg -3'
miRNA:   3'- gCCCUCACUUCG---------------CGaGCUUCuc--GCCG- -5'
18303 3' -56.4 NC_004681.1 + 43834 0.66 0.728534
Target:  5'- aGGuGGUGGaaugAGCGUgCGAguucaccgAGGGCGGCg -3'
miRNA:   3'- gCCcUCACU----UCGCGaGCU--------UCUCGCCG- -5'
18303 3' -56.4 NC_004681.1 + 44212 0.72 0.389329
Target:  5'- uCGGGGGUGAggcaggugccuuuguGGCGgugcuuCUCGAAG-GCGGUu -3'
miRNA:   3'- -GCCCUCACU---------------UCGC------GAGCUUCuCGCCG- -5'
18303 3' -56.4 NC_004681.1 + 44694 0.67 0.697449
Target:  5'- aCGGG-GUGAguAGUGCggcggccgCGAGcgcGGCGGCg -3'
miRNA:   3'- -GCCCuCACU--UCGCGa-------GCUUc--UCGCCG- -5'
18303 3' -56.4 NC_004681.1 + 45449 0.75 0.29143
Target:  5'- gCGGGAGUau-G-GCUCGAcgucGGAGCGGCc -3'
miRNA:   3'- -GCCCUCAcuuCgCGAGCU----UCUCGCCG- -5'
18303 3' -56.4 NC_004681.1 + 45555 0.65 0.775498
Target:  5'- -cGGAGUGGA-CGCugUCGuucaucaccacaccGAGGGCGGCc -3'
miRNA:   3'- gcCCUCACUUcGCG--AGC--------------UUCUCGCCG- -5'
18303 3' -56.4 NC_004681.1 + 48194 0.68 0.602043
Target:  5'- cCGGG-GUGAGGgGCUCGu--GGUGGa -3'
miRNA:   3'- -GCCCuCACUUCgCGAGCuucUCGCCg -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.