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
28160 3' -54.5 NC_005887.1 + 27284 1.13 0.000436
Target:  5'- gGCACGACUUCCAUGCCGGACAGGUGCu -3'
miRNA:   3'- -CGUGCUGAAGGUACGGCCUGUCCACG- -5'
28160 3' -54.5 NC_005887.1 + 647 0.66 0.71624
Target:  5'- cGCGCGGCgagcgcacgCgCAUGaCCGccGAcCAGGUGCu -3'
miRNA:   3'- -CGUGCUGaa-------G-GUAC-GGC--CU-GUCCACG- -5'
28160 3' -54.5 NC_005887.1 + 38280 0.66 0.71624
Target:  5'- gGCgACGACUUCgCAcGCaaCGGucaGGGUGCc -3'
miRNA:   3'- -CG-UGCUGAAG-GUaCG--GCCug-UCCACG- -5'
28160 3' -54.5 NC_005887.1 + 41649 0.66 0.705285
Target:  5'- uGCGCGGCgcacgcUUCGUcuacguuggcgaGCCGGACgaAGGUaGCg -3'
miRNA:   3'- -CGUGCUGa-----AGGUA------------CGGCCUG--UCCA-CG- -5'
28160 3' -54.5 NC_005887.1 + 37413 0.66 0.705285
Target:  5'- uCGCGACUgCC-UGCaCGc-CAGGUGCg -3'
miRNA:   3'- cGUGCUGAaGGuACG-GCcuGUCCACG- -5'
28160 3' -54.5 NC_005887.1 + 26978 0.66 0.694256
Target:  5'- -gGCGACgg-UGUGCCGGugAGGUuCa -3'
miRNA:   3'- cgUGCUGaagGUACGGCCugUCCAcG- -5'
28160 3' -54.5 NC_005887.1 + 33151 0.66 0.683164
Target:  5'- aGC-CGA---CCGUGCCGcGGC-GGUGCu -3'
miRNA:   3'- -CGuGCUgaaGGUACGGC-CUGuCCACG- -5'
28160 3' -54.5 NC_005887.1 + 22081 0.67 0.637282
Target:  5'- aGCACGGCggCCGUcgggGCCcuucuguGGAaacugcugcCGGGUGCg -3'
miRNA:   3'- -CGUGCUGaaGGUA----CGG-------CCU---------GUCCACG- -5'
28160 3' -54.5 NC_005887.1 + 17693 0.67 0.604732
Target:  5'- gGCACGAUgUUCGUgacgGCCGGcuacaACAaGGUGCc -3'
miRNA:   3'- -CGUGCUGaAGGUA----CGGCC-----UGU-CCACG- -5'
28160 3' -54.5 NC_005887.1 + 41391 0.68 0.58239
Target:  5'- uGCGCGACguguucUCCGacgaUGCCGaGCAGGUc- -3'
miRNA:   3'- -CGUGCUGa-----AGGU----ACGGCcUGUCCAcg -5'
28160 3' -54.5 NC_005887.1 + 30663 0.69 0.505976
Target:  5'- aGCGuCGACUUCuuCAUGUCGGGCAGa--- -3'
miRNA:   3'- -CGU-GCUGAAG--GUACGGCCUGUCcacg -5'
28160 3' -54.5 NC_005887.1 + 31124 0.72 0.334365
Target:  5'- aGCAgGGCgagCU-UGCCGGGCAGGccgUGCg -3'
miRNA:   3'- -CGUgCUGaa-GGuACGGCCUGUCC---ACG- -5'
28160 3' -54.5 NC_005887.1 + 3891 0.74 0.259123
Target:  5'- aUACGACg-CCAUGCCGGAU--GUGCg -3'
miRNA:   3'- cGUGCUGaaGGUACGGCCUGucCACG- -5'
28160 3' -54.5 NC_005887.1 + 22260 0.66 0.672022
Target:  5'- -uGCGACcgCCGcGCCGGACAGa--- -3'
miRNA:   3'- cgUGCUGaaGGUaCGGCCUGUCcacg -5'
28160 3' -54.5 NC_005887.1 + 7155 0.66 0.672022
Target:  5'- cGCGCGA-UUCCGUGUucaGGAgCGcgucGGUGCg -3'
miRNA:   3'- -CGUGCUgAAGGUACGg--CCU-GU----CCACG- -5'
28160 3' -54.5 NC_005887.1 + 1437 0.66 0.683164
Target:  5'- aGCGCGACgc----GCgGGACAGGaUGUa -3'
miRNA:   3'- -CGUGCUGaagguaCGgCCUGUCC-ACG- -5'
28160 3' -54.5 NC_005887.1 + 7504 0.66 0.705285
Target:  5'- uCACGACgcgcacgCCAgcccaaacgagGCgGcGGCGGGUGCg -3'
miRNA:   3'- cGUGCUGaa-----GGUa----------CGgC-CUGUCCACG- -5'
28160 3' -54.5 NC_005887.1 + 5003 0.66 0.705285
Target:  5'- uGCGCGuCUUCCAUcccgaggauCUGGAuCAGGcGCa -3'
miRNA:   3'- -CGUGCuGAAGGUAc--------GGCCU-GUCCaCG- -5'
28160 3' -54.5 NC_005887.1 + 27398 0.66 0.71624
Target:  5'- uGCGCGugGCgcagUCgAcgugGCCGGACGaGUGCg -3'
miRNA:   3'- -CGUGC--UGa---AGgUa---CGGCCUGUcCACG- -5'
28160 3' -54.5 NC_005887.1 + 10972 0.73 0.29488
Target:  5'- gGC-CGACgucaUCUgcGCCGGcuGCAGGUGCa -3'
miRNA:   3'- -CGuGCUGa---AGGuaCGGCC--UGUCCACG- -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.