miRNA display CGI


Results 1 - 20 of 64 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
28171 3' -56.5 NC_005887.1 + 33953 0.66 0.581018
Target:  5'- uCGGCGAgcacgUCGCGUGCGGCGUcCGu--- -3'
miRNA:   3'- -GCCGUU-----GGCGCAUGUCGCGuGCcuau -5'
28171 3' -56.5 NC_005887.1 + 2668 0.66 0.563337
Target:  5'- gGGCgagcacaagcaccugGugCGCGUGaAGCGUACGGGc- -3'
miRNA:   3'- gCCG---------------UugGCGCAUgUCGCGUGCCUau -5'
28171 3' -56.5 NC_005887.1 + 7430 0.66 0.558939
Target:  5'- aCGGCAAguuCCGC-UACAGCGCgACGu--- -3'
miRNA:   3'- -GCCGUU---GGCGcAUGUCGCG-UGCcuau -5'
28171 3' -56.5 NC_005887.1 + 20537 0.66 0.547986
Target:  5'- uCGGCGcGCC-CG-GCAGCGCcGCGGAc- -3'
miRNA:   3'- -GCCGU-UGGcGCaUGUCGCG-UGCCUau -5'
28171 3' -56.5 NC_005887.1 + 17451 0.66 0.547986
Target:  5'- cCGGCuGCUGCGaagaagACcgAGCGCGCGGc-- -3'
miRNA:   3'- -GCCGuUGGCGCa-----UG--UCGCGUGCCuau -5'
28171 3' -56.5 NC_005887.1 + 25495 0.66 0.547986
Target:  5'- gCGGCGGCU-CGgacgAUGGCGCGgCGGGUGg -3'
miRNA:   3'- -GCCGUUGGcGCa---UGUCGCGU-GCCUAU- -5'
28171 3' -56.5 NC_005887.1 + 19625 0.66 0.547986
Target:  5'- uCGGCA-CCGUcgugauggcugGUAUAGCGCA-GGAUc -3'
miRNA:   3'- -GCCGUuGGCG-----------CAUGUCGCGUgCCUAu -5'
28171 3' -56.5 NC_005887.1 + 17745 0.66 0.547986
Target:  5'- uCGGCAcgGCCGCGcggcugAUGGCGCcCGGu-- -3'
miRNA:   3'- -GCCGU--UGGCGCa-----UGUCGCGuGCCuau -5'
28171 3' -56.5 NC_005887.1 + 26228 0.66 0.546894
Target:  5'- gGGUggUUGCGcGCGGCGCAgcgccacCGGAa- -3'
miRNA:   3'- gCCGuuGGCGCaUGUCGCGU-------GCCUau -5'
28171 3' -56.5 NC_005887.1 + 8835 0.66 0.537101
Target:  5'- aCGGUGAUCGCcgACAagauCGCGCGGAUGc -3'
miRNA:   3'- -GCCGUUGGCGcaUGUc---GCGUGCCUAU- -5'
28171 3' -56.5 NC_005887.1 + 41951 0.66 0.537101
Target:  5'- cCGGCGuGCuCGCGUGguGCGUGCGcGGc- -3'
miRNA:   3'- -GCCGU-UG-GCGCAUguCGCGUGC-CUau -5'
28171 3' -56.5 NC_005887.1 + 34250 0.66 0.526293
Target:  5'- uCGGCGAgCGCGgcgaGCuGCGCGCGc--- -3'
miRNA:   3'- -GCCGUUgGCGCa---UGuCGCGUGCcuau -5'
28171 3' -56.5 NC_005887.1 + 37112 0.66 0.526293
Target:  5'- uCGGCGAUCGCGcgGCcGuCGCcCGGAa- -3'
miRNA:   3'- -GCCGUUGGCGCa-UGuC-GCGuGCCUau -5'
28171 3' -56.5 NC_005887.1 + 13648 0.66 0.523066
Target:  5'- cCGaGCAgcACCGaCGUgcagaacgcgaucaGCGGCGCgACGGGUGg -3'
miRNA:   3'- -GC-CGU--UGGC-GCA--------------UGUCGCG-UGCCUAU- -5'
28171 3' -56.5 NC_005887.1 + 38957 0.67 0.515567
Target:  5'- gCGGUAGCgCGCGgcgaACAGCGUGCGc--- -3'
miRNA:   3'- -GCCGUUG-GCGCa---UGUCGCGUGCcuau -5'
28171 3' -56.5 NC_005887.1 + 9131 0.67 0.515567
Target:  5'- aCGGCGcgACCGagugccaGUGCGGCGCguucaucuggACGGGc- -3'
miRNA:   3'- -GCCGU--UGGCg------CAUGUCGCG----------UGCCUau -5'
28171 3' -56.5 NC_005887.1 + 27032 0.67 0.50493
Target:  5'- uCGGCGAgCGCGcgACcGCGCACGc--- -3'
miRNA:   3'- -GCCGUUgGCGCa-UGuCGCGUGCcuau -5'
28171 3' -56.5 NC_005887.1 + 24926 0.67 0.50493
Target:  5'- uCGGCAccguugucgAUCGCGacGCGuGCGCGCGGGc- -3'
miRNA:   3'- -GCCGU---------UGGCGCa-UGU-CGCGUGCCUau -5'
28171 3' -56.5 NC_005887.1 + 27356 0.67 0.494389
Target:  5'- gGGCGGCaCGCcUGCGGCcuGCGCGGc-- -3'
miRNA:   3'- gCCGUUG-GCGcAUGUCG--CGUGCCuau -5'
28171 3' -56.5 NC_005887.1 + 4473 0.67 0.48395
Target:  5'- cCGGCuGCCGCGaaggugccgaACGGCGCGCGc--- -3'
miRNA:   3'- -GCCGuUGGCGCa---------UGUCGCGUGCcuau -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.