miRNA display CGI


Results 1 - 20 of 40 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
16273 3' -50.8 NC_004084.1 + 46528 1.11 0.002422
Target:  5'- gACGAUCUCGGCAUCGAAGUCUUCGACg -3'
miRNA:   3'- -UGCUAGAGCCGUAGCUUCAGAAGCUG- -5'
16273 3' -50.8 NC_004084.1 + 47644 0.84 0.153491
Target:  5'- cCGAcUUCGGCGUCGAGGUCggCGACg -3'
miRNA:   3'- uGCUaGAGCCGUAGCUUCAGaaGCUG- -5'
16273 3' -50.8 NC_004084.1 + 11876 0.79 0.278959
Target:  5'- gACGAUC-CGGaCGUCGAAGaCUUCGAUg -3'
miRNA:   3'- -UGCUAGaGCC-GUAGCUUCaGAAGCUG- -5'
16273 3' -50.8 NC_004084.1 + 1414 0.75 0.453248
Target:  5'- gGCGucgccauUCUCGGCGUCGccGUCcUCGGCc -3'
miRNA:   3'- -UGCu------AGAGCCGUAGCuuCAGaAGCUG- -5'
16273 3' -50.8 NC_004084.1 + 35132 0.75 0.463428
Target:  5'- uCGAUcCUgGGCGUCGAGGUCcUCGGg -3'
miRNA:   3'- uGCUA-GAgCCGUAGCUUCAGaAGCUg -5'
16273 3' -50.8 NC_004084.1 + 18095 0.74 0.55971
Target:  5'- gACGAUCUCGGaCGUC-AGGUCgaggUCGGg -3'
miRNA:   3'- -UGCUAGAGCC-GUAGcUUCAGa---AGCUg -5'
16273 3' -50.8 NC_004084.1 + 50605 0.72 0.649462
Target:  5'- aGCGugcCUCcaGCGUCGAGGUCgUCGACg -3'
miRNA:   3'- -UGCua-GAGc-CGUAGCUUCAGaAGCUG- -5'
16273 3' -50.8 NC_004084.1 + 37061 0.71 0.694261
Target:  5'- uCGAuguUCUCGGUGUCGAGGUCcuccUCGuCa -3'
miRNA:   3'- uGCU---AGAGCCGUAGCUUCAGa---AGCuG- -5'
16273 3' -50.8 NC_004084.1 + 39406 0.71 0.705333
Target:  5'- uCGAgCUCGGCGUCGucGUCcucacUCGAUg -3'
miRNA:   3'- uGCUaGAGCCGUAGCuuCAGa----AGCUG- -5'
16273 3' -50.8 NC_004084.1 + 49515 0.71 0.705333
Target:  5'- uCGAUCcggUCGGCAuccacggacgaUCGAGGUgaUCGGCg -3'
miRNA:   3'- uGCUAG---AGCCGU-----------AGCUUCAgaAGCUG- -5'
16273 3' -50.8 NC_004084.1 + 22156 0.7 0.769758
Target:  5'- cGCGAgcgcCUCGGCGcacUCGAGGaCgUCGACc -3'
miRNA:   3'- -UGCUa---GAGCCGU---AGCUUCaGaAGCUG- -5'
16273 3' -50.8 NC_004084.1 + 36461 0.7 0.780046
Target:  5'- uCGAUCUCGGCGgagaCGucGUCcUgGACg -3'
miRNA:   3'- uGCUAGAGCCGUa---GCuuCAGaAgCUG- -5'
16273 3' -50.8 NC_004084.1 + 30975 0.69 0.790173
Target:  5'- aGCGAg--CGGUGUCGAAGUCgauuccUGACg -3'
miRNA:   3'- -UGCUagaGCCGUAGCUUCAGaa----GCUG- -5'
16273 3' -50.8 NC_004084.1 + 51151 0.69 0.800127
Target:  5'- gUGAUCUCGGUGUCGguGUCgcucUCGuCc -3'
miRNA:   3'- uGCUAGAGCCGUAGCuuCAGa---AGCuG- -5'
16273 3' -50.8 NC_004084.1 + 16916 0.69 0.826982
Target:  5'- gGCGAUCguggccgggugcgguUCGGCAUCGgcGggcgucgcgacgucgGGUCUUCGAg -3'
miRNA:   3'- -UGCUAG---------------AGCCGUAGC--U---------------UCAGAAGCUg -5'
16273 3' -50.8 NC_004084.1 + 632 0.69 0.828839
Target:  5'- gGCGAUCUCGuCGUgGAGcUCcUCGACg -3'
miRNA:   3'- -UGCUAGAGCcGUAgCUUcAGaAGCUG- -5'
16273 3' -50.8 NC_004084.1 + 25200 0.69 0.828839
Target:  5'- gACGGcccgCUCGGCcgCcucuGUCUUCGGCu -3'
miRNA:   3'- -UGCUa---GAGCCGuaGcuu-CAGAAGCUG- -5'
16273 3' -50.8 NC_004084.1 + 24061 0.68 0.83799
Target:  5'- cGCGGUUgCGGCGUCcaucaugccgcGAAGugcgcUCUUCGACu -3'
miRNA:   3'- -UGCUAGaGCCGUAG-----------CUUC-----AGAAGCUG- -5'
16273 3' -50.8 NC_004084.1 + 32019 0.68 0.846913
Target:  5'- gACGGaagggCUCGGguUCGAGGaccUCUaCGACg -3'
miRNA:   3'- -UGCUa----GAGCCguAGCUUC---AGAaGCUG- -5'
16273 3' -50.8 NC_004084.1 + 6784 0.68 0.855599
Target:  5'- -aGGUCUCGGCGgggacguucUCGAAGgcaaUCGAUg -3'
miRNA:   3'- ugCUAGAGCCGU---------AGCUUCaga-AGCUG- -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.