miRNA display CGI


Results 1 - 20 of 77 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
13969 3' -54.8 NC_003521.1 + 161985 0.66 0.973843
Target:  5'- -----aCCUUCGGCugGUGCuCCGu- -3'
miRNA:   3'- uguucaGGAAGCCGugCGCGuGGUua -5'
13969 3' -54.8 NC_003521.1 + 167193 0.66 0.973843
Target:  5'- -gGAGgCCUUCugcuugggcuGGCAgGCGCGCCGc- -3'
miRNA:   3'- ugUUCaGGAAG----------CCGUgCGCGUGGUua -5'
13969 3' -54.8 NC_003521.1 + 203679 0.66 0.973843
Target:  5'- aGCAGGUagaagcagaagCCgcgCGGCAuguUGCGCGCCGu- -3'
miRNA:   3'- -UGUUCA-----------GGaa-GCCGU---GCGCGUGGUua -5'
13969 3' -54.8 NC_003521.1 + 18763 0.66 0.973843
Target:  5'- gACGGGUCgCUgcugcgaCGGCugGUGCcccccGCCGAUa -3'
miRNA:   3'- -UGUUCAG-GAa------GCCGugCGCG-----UGGUUA- -5'
13969 3' -54.8 NC_003521.1 + 212090 0.66 0.971114
Target:  5'- cGCGcGUCUgguugUCGGCGUGCGcCACCAu- -3'
miRNA:   3'- -UGUuCAGGa----AGCCGUGCGC-GUGGUua -5'
13969 3' -54.8 NC_003521.1 + 24876 0.66 0.968186
Target:  5'- aGCAGGUCCUcaUGGUGCGCuaccuCACCAu- -3'
miRNA:   3'- -UGUUCAGGAa-GCCGUGCGc----GUGGUua -5'
13969 3' -54.8 NC_003521.1 + 62343 0.66 0.968186
Target:  5'- gACucGUCCUUCGGCAgcacgGUGCACg--- -3'
miRNA:   3'- -UGuuCAGGAAGCCGUg----CGCGUGguua -5'
13969 3' -54.8 NC_003521.1 + 222178 0.66 0.967268
Target:  5'- aGCAGGUCCgugCGGCcccACGCcacguuguuauuagGCACCu-- -3'
miRNA:   3'- -UGUUCAGGaa-GCCG---UGCG--------------CGUGGuua -5'
13969 3' -54.8 NC_003521.1 + 65358 0.66 0.965054
Target:  5'- gACGugcuGUCCggggagaCGGCGCGC-CGCCGAUc -3'
miRNA:   3'- -UGUu---CAGGaa-----GCCGUGCGcGUGGUUA- -5'
13969 3' -54.8 NC_003521.1 + 153396 0.66 0.965054
Target:  5'- cGCAGGaucUCC-UCGuGCAgGUGCGCCAc- -3'
miRNA:   3'- -UGUUC---AGGaAGC-CGUgCGCGUGGUua -5'
13969 3' -54.8 NC_003521.1 + 37412 0.66 0.965054
Target:  5'- cACGGG-CCUgaccgugUGGCGCG-GCGCCGAg -3'
miRNA:   3'- -UGUUCaGGAa------GCCGUGCgCGUGGUUa -5'
13969 3' -54.8 NC_003521.1 + 187626 0.66 0.965054
Target:  5'- gGCGAG-CCg--GGC-CGCGCGCCGc- -3'
miRNA:   3'- -UGUUCaGGaagCCGuGCGCGUGGUua -5'
13969 3' -54.8 NC_003521.1 + 97480 0.66 0.961711
Target:  5'- ---cGUCCUUgGGCACGUagACCAGg -3'
miRNA:   3'- uguuCAGGAAgCCGUGCGcgUGGUUa -5'
13969 3' -54.8 NC_003521.1 + 179528 0.66 0.958153
Target:  5'- uGCAuGUCCUUggacaGGUGCGCGCggcucagcGCCAAg -3'
miRNA:   3'- -UGUuCAGGAAg----CCGUGCGCG--------UGGUUa -5'
13969 3' -54.8 NC_003521.1 + 215931 0.66 0.958153
Target:  5'- ---cGUCCcgCGGCAUggugagguaGCGCACCAu- -3'
miRNA:   3'- uguuCAGGaaGCCGUG---------CGCGUGGUua -5'
13969 3' -54.8 NC_003521.1 + 117386 0.67 0.954374
Target:  5'- uGCAGGUg---CGGCACGCGCugUg-- -3'
miRNA:   3'- -UGUUCAggaaGCCGUGCGCGugGuua -5'
13969 3' -54.8 NC_003521.1 + 19219 0.67 0.950372
Target:  5'- uGCGAccuggCUUUCGGCuCGCGCACgCAAa -3'
miRNA:   3'- -UGUUca---GGAAGCCGuGCGCGUG-GUUa -5'
13969 3' -54.8 NC_003521.1 + 2872 0.67 0.950372
Target:  5'- gACGAGUCCaUCugGGUAuUGgGCACCAGUc -3'
miRNA:   3'- -UGUUCAGGaAG--CCGU-GCgCGUGGUUA- -5'
13969 3' -54.8 NC_003521.1 + 101893 0.67 0.950372
Target:  5'- --uGGUCCaUCuuguacauguagGGCAgGCGCACCGAg -3'
miRNA:   3'- uguUCAGGaAG------------CCGUgCGCGUGGUUa -5'
13969 3' -54.8 NC_003521.1 + 30442 0.67 0.949127
Target:  5'- aACAuGUCCaggCGGCcgagggugccgaugACGCGCACCu-- -3'
miRNA:   3'- -UGUuCAGGaa-GCCG--------------UGCGCGUGGuua -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.