miRNA display CGI


Results 1 - 18 of 18 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
27036 3' -55.2 NC_005832.1 + 88141 0.66 0.87436
Target:  5'- aUCUCCGAGAGGacccu---GGCCAGg -3'
miRNA:   3'- cAGAGGCUCUCCgagcaguuCUGGUC- -5'
27036 3' -55.2 NC_005832.1 + 11528 0.66 0.868311
Target:  5'- gGUCUgCC-AGAGGCUgcauaGUCcuGGCCAGg -3'
miRNA:   3'- -CAGA-GGcUCUCCGAg----CAGuuCUGGUC- -5'
27036 3' -55.2 NC_005832.1 + 71159 0.66 0.860547
Target:  5'- aGUUUgCCgGAGAGGC-CGUCAGG-CCGu -3'
miRNA:   3'- -CAGA-GG-CUCUCCGaGCAGUUCuGGUc -5'
27036 3' -55.2 NC_005832.1 + 43285 0.66 0.852565
Target:  5'- ---cCCGuGGGGUUCGUgCGggAGGCCAGg -3'
miRNA:   3'- cagaGGCuCUCCGAGCA-GU--UCUGGUC- -5'
27036 3' -55.2 NC_005832.1 + 69460 0.66 0.852565
Target:  5'- gGUCUCCGAGaAGGuCUCcaucCAAGucuCCAGc -3'
miRNA:   3'- -CAGAGGCUC-UCC-GAGca--GUUCu--GGUC- -5'
27036 3' -55.2 NC_005832.1 + 64228 0.67 0.809628
Target:  5'- cUCggcCCGAccGGCUCuGUCAAGGCCGa -3'
miRNA:   3'- cAGa--GGCUcuCCGAG-CAGUUCUGGUc -5'
27036 3' -55.2 NC_005832.1 + 12644 0.68 0.762434
Target:  5'- cGUCgugCUuGGAGGCa-GUCAGGACUAGg -3'
miRNA:   3'- -CAGa--GGcUCUCCGagCAGUUCUGGUC- -5'
27036 3' -55.2 NC_005832.1 + 65596 0.69 0.712178
Target:  5'- ---gCCGGGGGGagauUCGUCAAGACCc- -3'
miRNA:   3'- cagaGGCUCUCCg---AGCAGUUCUGGuc -5'
27036 3' -55.2 NC_005832.1 + 39541 0.69 0.712178
Target:  5'- --gUCCGGGAGGaCcCG-CGGGACCAGu -3'
miRNA:   3'- cagAGGCUCUCC-GaGCaGUUCUGGUC- -5'
27036 3' -55.2 NC_005832.1 + 47097 0.69 0.701869
Target:  5'- aGUCUUCGucGGGCUCGUCA-GACa-- -3'
miRNA:   3'- -CAGAGGCucUCCGAGCAGUuCUGguc -5'
27036 3' -55.2 NC_005832.1 + 32750 0.7 0.664313
Target:  5'- uGUCUgCGGGAGGCaggagaaaCGUCcuucccuucaggcccGAGACCAGg -3'
miRNA:   3'- -CAGAgGCUCUCCGa-------GCAG---------------UUCUGGUC- -5'
27036 3' -55.2 NC_005832.1 + 45779 0.7 0.649587
Target:  5'- cUgUCCGAGAGGCUCGagAcuucAGACUAc -3'
miRNA:   3'- cAgAGGCUCUCCGAGCagU----UCUGGUc -5'
27036 3' -55.2 NC_005832.1 + 96396 0.71 0.59273
Target:  5'- aUCUCCGucuuuuuuuauucGGGGCUCGcgcUCAGGGCCAu -3'
miRNA:   3'- cAGAGGCu------------CUCCGAGC---AGUUCUGGUc -5'
27036 3' -55.2 NC_005832.1 + 33107 0.71 0.586445
Target:  5'- cUCUCCGGGuGGCUCcuguuGACCGGg -3'
miRNA:   3'- cAGAGGCUCuCCGAGcaguuCUGGUC- -5'
27036 3' -55.2 NC_005832.1 + 5032 0.72 0.569749
Target:  5'- aUCUCaCGucagguuccaccccaGGAGGCUgGUCAuGACCAGg -3'
miRNA:   3'- cAGAG-GC---------------UCUCCGAgCAGUuCUGGUC- -5'
27036 3' -55.2 NC_005832.1 + 67771 0.72 0.555238
Target:  5'- cGUCaggaGAGAGGCUcaCGUCAGGGCCGa -3'
miRNA:   3'- -CAGagg-CUCUCCGA--GCAGUUCUGGUc -5'
27036 3' -55.2 NC_005832.1 + 1662 0.73 0.494499
Target:  5'- aGUCgCCGAGGGuguagucguaguGCUCGUgAGGACCGGc -3'
miRNA:   3'- -CAGaGGCUCUC------------CGAGCAgUUCUGGUC- -5'
27036 3' -55.2 NC_005832.1 + 13153 1.1 0.002026
Target:  5'- cGUCUCCGAGAGGCUCGUCAAGACCAGg -3'
miRNA:   3'- -CAGAGGCUCUCCGAGCAGUUCUGGUC- -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.