miRNA display CGI


Results 1 - 16 of 16 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
22907 5' -54.7 NC_005137.2 + 98114 0.66 0.930566
Target:  5'- uGUCACCGC---CGCCGGCUaccGcGUCGUCg -3'
miRNA:   3'- -CAGUGGUGccuGUGGUUGA---C-CAGCAG- -5'
22907 5' -54.7 NC_005137.2 + 62250 0.66 0.925197
Target:  5'- -gCGCCACacaagcGGCACCAACgcguUGGUCGa- -3'
miRNA:   3'- caGUGGUGc-----CUGUGGUUG----ACCAGCag -5'
22907 5' -54.7 NC_005137.2 + 27371 0.66 0.913715
Target:  5'- --aGCUggaaGGACGCCAGCgguUGGUCGUUu -3'
miRNA:   3'- cagUGGug--CCUGUGGUUG---ACCAGCAG- -5'
22907 5' -54.7 NC_005137.2 + 84695 0.66 0.913715
Target:  5'- -gUACCGCGGAuCGCCAuacaacaggcACUcGG-CGUCg -3'
miRNA:   3'- caGUGGUGCCU-GUGGU----------UGA-CCaGCAG- -5'
22907 5' -54.7 NC_005137.2 + 120086 0.66 0.913715
Target:  5'- cUCGCCgGCGGAggaaACCAACUGGgaaaGUa -3'
miRNA:   3'- cAGUGG-UGCCUg---UGGUUGACCag--CAg -5'
22907 5' -54.7 NC_005137.2 + 19247 0.67 0.903822
Target:  5'- cUCACCGCcuauuuugaaacguuGGACGCCAACacGUCG-Cg -3'
miRNA:   3'- cAGUGGUG---------------CCUGUGGUUGacCAGCaG- -5'
22907 5' -54.7 NC_005137.2 + 31206 0.67 0.889897
Target:  5'- cGUCGCCcuuguaccagcggucGCGGcACACCAGCuugaacaUGGccgCGUCg -3'
miRNA:   3'- -CAGUGG---------------UGCC-UGUGGUUG-------ACCa--GCAG- -5'
22907 5' -54.7 NC_005137.2 + 1505 0.67 0.873461
Target:  5'- -cCGCCGCGcGGCGCCGAC-GcGUUGUUc -3'
miRNA:   3'- caGUGGUGC-CUGUGGUUGaC-CAGCAG- -5'
22907 5' -54.7 NC_005137.2 + 86081 0.68 0.850254
Target:  5'- cGUCACCgACGaGCACCAcUUGGUCa-- -3'
miRNA:   3'- -CAGUGG-UGCcUGUGGUuGACCAGcag -5'
22907 5' -54.7 NC_005137.2 + 43560 0.68 0.849448
Target:  5'- -gCGCUuuuGCGGGCGCaCGaaugcguACUGGUCGUUg -3'
miRNA:   3'- caGUGG---UGCCUGUG-GU-------UGACCAGCAG- -5'
22907 5' -54.7 NC_005137.2 + 100147 0.68 0.825205
Target:  5'- cUCGCCcacguACGGGCGC--GCcgGGUCGUCa -3'
miRNA:   3'- cAGUGG-----UGCCUGUGguUGa-CCAGCAG- -5'
22907 5' -54.7 NC_005137.2 + 12337 0.7 0.760805
Target:  5'- -aCACCACGGACuuuGCC-ACaGcGUCGUCc -3'
miRNA:   3'- caGUGGUGCCUG---UGGuUGaC-CAGCAG- -5'
22907 5' -54.7 NC_005137.2 + 20523 0.7 0.751057
Target:  5'- uGUUA-CACGcACGCCGACUGGUUGUg -3'
miRNA:   3'- -CAGUgGUGCcUGUGGUUGACCAGCAg -5'
22907 5' -54.7 NC_005137.2 + 95878 0.7 0.731245
Target:  5'- -aCACCGCcGACACgGGCaUGGUgCGUCg -3'
miRNA:   3'- caGUGGUGcCUGUGgUUG-ACCA-GCAG- -5'
22907 5' -54.7 NC_005137.2 + 29053 0.73 0.597169
Target:  5'- uGUCACUguuaaaguuGCGGACACUGAC-GGUgGUCa -3'
miRNA:   3'- -CAGUGG---------UGCCUGUGGUUGaCCAgCAG- -5'
22907 5' -54.7 NC_005137.2 + 20401 1.1 0.002582
Target:  5'- cGUCACCACGGACACCAACUGGUCGUCg -3'
miRNA:   3'- -CAGUGGUGCCUGUGGUUGACCAGCAG- -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.