miRNA display CGI


Results 1 - 20 of 41 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
23679 3' -56.7 NC_005261.1 + 125244 0.66 0.894413
Target:  5'- uACACGuucUCGUCCUCacugguguccUCGUCCGGGGg- -3'
miRNA:   3'- -UGUGC---AGCAGGAGc---------GGCAGGCUCUac -5'
23679 3' -56.7 NC_005261.1 + 100816 0.66 0.880888
Target:  5'- gGCGCGUgCG-CCUgCGCCGcccaggCCGGGAg- -3'
miRNA:   3'- -UGUGCA-GCaGGA-GCGGCa-----GGCUCUac -5'
23679 3' -56.7 NC_005261.1 + 41104 0.66 0.880888
Target:  5'- cCGCGUCGUCCgCGgCGggcCCGAGc-- -3'
miRNA:   3'- uGUGCAGCAGGaGCgGCa--GGCUCuac -5'
23679 3' -56.7 NC_005261.1 + 37356 0.66 0.873797
Target:  5'- cCGCGggcgGUgCUCGCCGcCCGAGGc- -3'
miRNA:   3'- uGUGCag--CAgGAGCGGCaGGCUCUac -5'
23679 3' -56.7 NC_005261.1 + 16394 0.66 0.866495
Target:  5'- cGC-CGUCGUCgUCGCCGggcggugCGGGAg- -3'
miRNA:   3'- -UGuGCAGCAGgAGCGGCag-----GCUCUac -5'
23679 3' -56.7 NC_005261.1 + 79646 0.67 0.858986
Target:  5'- aGCuCGUUGUCCUCGCCGagCUGGc--- -3'
miRNA:   3'- -UGuGCAGCAGGAGCGGCa-GGCUcuac -5'
23679 3' -56.7 NC_005261.1 + 71327 0.67 0.854383
Target:  5'- aGCACGUagccggccgcgagcgCGUCCUCGgUGagcgCCGAGAg- -3'
miRNA:   3'- -UGUGCA---------------GCAGGAGCgGCa---GGCUCUac -5'
23679 3' -56.7 NC_005261.1 + 9276 0.67 0.851275
Target:  5'- cACACcUCGUCCaUCGCCGcggaccgcaaCCGAGGa- -3'
miRNA:   3'- -UGUGcAGCAGG-AGCGGCa---------GGCUCUac -5'
23679 3' -56.7 NC_005261.1 + 43865 0.67 0.84337
Target:  5'- cCGCGUCGUCCUCGgCGgcgcggCUGAu--- -3'
miRNA:   3'- uGUGCAGCAGGAGCgGCa-----GGCUcuac -5'
23679 3' -56.7 NC_005261.1 + 29846 0.67 0.84337
Target:  5'- uGCGCGcCGUgCUCGCCGgCCGcGcgGc -3'
miRNA:   3'- -UGUGCaGCAgGAGCGGCaGGCuCuaC- -5'
23679 3' -56.7 NC_005261.1 + 2267 0.67 0.835277
Target:  5'- gGCGC-UCGUCCUCGCCGggCGGc--- -3'
miRNA:   3'- -UGUGcAGCAGGAGCGGCagGCUcuac -5'
23679 3' -56.7 NC_005261.1 + 81303 0.67 0.830334
Target:  5'- cGCACGUCcgugccguugucgggGUCgUCGCCGUCguCGGGGc- -3'
miRNA:   3'- -UGUGCAG---------------CAGgAGCGGCAG--GCUCUac -5'
23679 3' -56.7 NC_005261.1 + 103584 0.67 0.827003
Target:  5'- cCGCGcCGUCgCUCGCCG-CCGuGGc- -3'
miRNA:   3'- uGUGCaGCAG-GAGCGGCaGGCuCUac -5'
23679 3' -56.7 NC_005261.1 + 93934 0.67 0.827003
Target:  5'- -uGCGcCGUCCgcgggCGCCGccUCCGGGcgGu -3'
miRNA:   3'- ugUGCaGCAGGa----GCGGC--AGGCUCuaC- -5'
23679 3' -56.7 NC_005261.1 + 103227 0.67 0.818555
Target:  5'- aGCGCGcgcaGUCCUcCGCCGUCCGc---- -3'
miRNA:   3'- -UGUGCag--CAGGA-GCGGCAGGCucuac -5'
23679 3' -56.7 NC_005261.1 + 93590 0.68 0.809941
Target:  5'- cGCGCGcUCGgcgaCCUCGCCGUcgccCCGGGu-- -3'
miRNA:   3'- -UGUGC-AGCa---GGAGCGGCA----GGCUCuac -5'
23679 3' -56.7 NC_005261.1 + 52315 0.68 0.809941
Target:  5'- uCGuCGUCGcacUCCUCGCCGUCCuuGGc- -3'
miRNA:   3'- uGU-GCAGC---AGGAGCGGCAGGcuCUac -5'
23679 3' -56.7 NC_005261.1 + 37535 0.68 0.793144
Target:  5'- cGCACGagGUCCgcgCGCCGcucccgccgccgccaCCGGGGUGc -3'
miRNA:   3'- -UGUGCagCAGGa--GCGGCa--------------GGCUCUAC- -5'
23679 3' -56.7 NC_005261.1 + 46113 0.68 0.792245
Target:  5'- gGC-CGUgGUCCgcguccagcaggUCGCCGcCCGAGAa- -3'
miRNA:   3'- -UGuGCAgCAGG------------AGCGGCaGGCUCUac -5'
23679 3' -56.7 NC_005261.1 + 72154 0.68 0.773984
Target:  5'- uGCACGUCcgggguGUCCgggauccCGgCGUCCGAGAc- -3'
miRNA:   3'- -UGUGCAG------CAGGa------GCgGCAGGCUCUac -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.