miRNA display CGI


Results 1 - 20 of 91 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
11939 3' -62.8 NC_003278.1 + 545 0.67 0.181123
Target:  5'- gACGGCGGUAgCACCcuguuGGgGCAGUaCGa -3'
miRNA:   3'- -UGUCGCCGUgGUGGu----CCgCGUCGcGC- -5'
11939 3' -62.8 NC_003278.1 + 1752 0.69 0.141834
Target:  5'- --cGCGGUcuucAgCGCCGuGCGCAGCGCGu -3'
miRNA:   3'- uguCGCCG----UgGUGGUcCGCGUCGCGC- -5'
11939 3' -62.8 NC_003278.1 + 2053 0.69 0.134232
Target:  5'- cCAGCGGCGCCugCAGcG-GCAuccGCGUa -3'
miRNA:   3'- uGUCGCCGUGGugGUC-CgCGU---CGCGc -5'
11939 3' -62.8 NC_003278.1 + 2985 0.66 0.248262
Target:  5'- -uGGUGGCGCCuccggcgguACCGGGCgGCAaguuccGCGUGc -3'
miRNA:   3'- ugUCGCCGUGG---------UGGUCCG-CGU------CGCGC- -5'
11939 3' -62.8 NC_003278.1 + 2993 0.68 0.157801
Target:  5'- cCAGCcacaccuGGCgAUCACCGaacGGcCGCAGCGCGa -3'
miRNA:   3'- uGUCG-------CCG-UGGUGGU---CC-GCGUCGCGC- -5'
11939 3' -62.8 NC_003278.1 + 3063 0.66 0.23579
Target:  5'- cGCuGCGGCcguucggugAUCGCCAGGUGUGGCuggGCu -3'
miRNA:   3'- -UGuCGCCG---------UGGUGGUCCGCGUCG---CGc -5'
11939 3' -62.8 NC_003278.1 + 4004 0.67 0.181123
Target:  5'- uGCAuCGGCAgCuugagcGCCAGGCGCGGauccaGCGc -3'
miRNA:   3'- -UGUcGCCGUgG------UGGUCCGCGUCg----CGC- -5'
11939 3' -62.8 NC_003278.1 + 4305 0.68 0.167057
Target:  5'- -gGGCGGCGCUACUgagGGGCG-AGgGUGg -3'
miRNA:   3'- ugUCGCCGUGGUGG---UCCGCgUCgCGC- -5'
11939 3' -62.8 NC_003278.1 + 4373 0.67 0.212423
Target:  5'- -gAGgGGCAUguUCGGGaCGCGcGCGCGg -3'
miRNA:   3'- ugUCgCCGUGguGGUCC-GCGU-CGCGC- -5'
11939 3' -62.8 NC_003278.1 + 5149 0.67 0.191075
Target:  5'- aGCAGCGGCccccggUCACCGguGGCGgCAGUGUc -3'
miRNA:   3'- -UGUCGCCGu-----GGUGGU--CCGC-GUCGCGc -5'
11939 3' -62.8 NC_003278.1 + 5445 0.67 0.201504
Target:  5'- uCAGCGGCACCaucGCCAGcCGUaccgauaccacuGGCGaCGg -3'
miRNA:   3'- uGUCGCCGUGG---UGGUCcGCG------------UCGC-GC- -5'
11939 3' -62.8 NC_003278.1 + 5967 0.69 0.137985
Target:  5'- --cGCGGCcgaggaucACCACCAGGCccgggucacgGCGGUGCc -3'
miRNA:   3'- uguCGCCG--------UGGUGGUCCG----------CGUCGCGc -5'
11939 3' -62.8 NC_003278.1 + 6311 0.69 0.134232
Target:  5'- gGCGGCGGCcacuGCCccgcACCAGG-GCauggaaGGCGCGa -3'
miRNA:   3'- -UGUCGCCG----UGG----UGGUCCgCG------UCGCGC- -5'
11939 3' -62.8 NC_003278.1 + 6361 0.67 0.196229
Target:  5'- gGCAGUGGcCGCCGCCucuugagcGGCGguCAcGCGCa -3'
miRNA:   3'- -UGUCGCC-GUGGUGGu-------CCGC--GU-CGCGc -5'
11939 3' -62.8 NC_003278.1 + 7035 0.68 0.167057
Target:  5'- gGCAGauCGGCcCCgaGCC-GGCGgGGCGCGg -3'
miRNA:   3'- -UGUC--GCCGuGG--UGGuCCGCgUCGCGC- -5'
11939 3' -62.8 NC_003278.1 + 7827 0.66 0.223848
Target:  5'- cCGGCGGUgcgaccguaguGCCGCCA-GCaCAGCGCc -3'
miRNA:   3'- uGUCGCCG-----------UGGUGGUcCGcGUCGCGc -5'
11939 3' -62.8 NC_003278.1 + 8109 0.66 0.248262
Target:  5'- cCGGUGGC-CaGCCAGGCGCcgagcAGgGCa -3'
miRNA:   3'- uGUCGCCGuGgUGGUCCGCG-----UCgCGc -5'
11939 3' -62.8 NC_003278.1 + 8148 0.66 0.218071
Target:  5'- gACAGCaGGCGCgACCAGGCcuucagguccuGCuucGUGCc -3'
miRNA:   3'- -UGUCG-CCGUGgUGGUCCG-----------CGu--CGCGc -5'
11939 3' -62.8 NC_003278.1 + 8424 0.82 0.01454
Target:  5'- cGCAGCgcuGGUAgCagACCAGGCGCAGCGCGg -3'
miRNA:   3'- -UGUCG---CCGUgG--UGGUCCGCGUCGCGC- -5'
11939 3' -62.8 NC_003278.1 + 8664 0.75 0.05116
Target:  5'- gACGGCcacuucGGCGCCGCCaccgAGGaCGCGGUGCGu -3'
miRNA:   3'- -UGUCG------CCGUGGUGG----UCC-GCGUCGCGC- -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.