miRNA display CGI


Results 1 - 18 of 18 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
17019 3' -55.3 NC_004333.2 + 32277 0.66 0.701809
Target:  5'- uCCGGAUGGC-GCggGUCgGcGGCGAUg -3'
miRNA:   3'- cGGCCUACUGcCGa-UAGgCaCCGUUG- -5'
17019 3' -55.3 NC_004333.2 + 38752 0.66 0.668848
Target:  5'- aCCGGAcGGCGuGCgcagcCCGcagGGCAGCg -3'
miRNA:   3'- cGGCCUaCUGC-CGaua--GGCa--CCGUUG- -5'
17019 3' -55.3 NC_004333.2 + 19476 0.66 0.668848
Target:  5'- uGCCGGAaGuCGuGCUGcUCgCGaucUGGCAGCa -3'
miRNA:   3'- -CGGCCUaCuGC-CGAU-AG-GC---ACCGUUG- -5'
17019 3' -55.3 NC_004333.2 + 18183 0.66 0.657776
Target:  5'- cGCCGcAUGGugcucgcgcuCGGCg--CCgGUGGCAGCg -3'
miRNA:   3'- -CGGCcUACU----------GCCGauaGG-CACCGUUG- -5'
17019 3' -55.3 NC_004333.2 + 11710 0.66 0.657776
Target:  5'- cGCCGGgcGGCGuGCUggcGUCC-UGcGCGAUg -3'
miRNA:   3'- -CGGCCuaCUGC-CGA---UAGGcAC-CGUUG- -5'
17019 3' -55.3 NC_004333.2 + 17623 0.66 0.657776
Target:  5'- cGCCGGccGcgccCGGUg--CCGUGGcCGACa -3'
miRNA:   3'- -CGGCCuaCu---GCCGauaGGCACC-GUUG- -5'
17019 3' -55.3 NC_004333.2 + 22752 0.67 0.63557
Target:  5'- cCCGGcGUGACGGCcg-CCGccGGCAc- -3'
miRNA:   3'- cGGCC-UACUGCCGauaGGCa-CCGUug -5'
17019 3' -55.3 NC_004333.2 + 38592 0.67 0.624457
Target:  5'- cGCCGGcUGGC-GCUGaagGUGGCGGCa -3'
miRNA:   3'- -CGGCCuACUGcCGAUaggCACCGUUG- -5'
17019 3' -55.3 NC_004333.2 + 39647 0.68 0.547382
Target:  5'- uGCCGGu---CGcGCUGUUCGgcacgGGCGACu -3'
miRNA:   3'- -CGGCCuacuGC-CGAUAGGCa----CCGUUG- -5'
17019 3' -55.3 NC_004333.2 + 24517 0.69 0.463409
Target:  5'- cGCCGGAggccGGCGGCguUCCGccucaaGGCGAg -3'
miRNA:   3'- -CGGCCUa---CUGCCGauAGGCa-----CCGUUg -5'
17019 3' -55.3 NC_004333.2 + 43329 0.7 0.433672
Target:  5'- cGCCGGAaaucaUGACGGCcAUC--UGGCAGa -3'
miRNA:   3'- -CGGCCU-----ACUGCCGaUAGgcACCGUUg -5'
17019 3' -55.3 NC_004333.2 + 23670 0.71 0.405074
Target:  5'- cGCCGGccuccGGCGGCUGcaUCGUGGcCGGCg -3'
miRNA:   3'- -CGGCCua---CUGCCGAUa-GGCACC-GUUG- -5'
17019 3' -55.3 NC_004333.2 + 18548 0.71 0.405074
Target:  5'- cCCGGGUG-CGGCag-CCGgcgcGGCGGCg -3'
miRNA:   3'- cGGCCUACuGCCGauaGGCa---CCGUUG- -5'
17019 3' -55.3 NC_004333.2 + 8971 0.71 0.368847
Target:  5'- gGCUGGAUcGugGGCcGUgCGcGGCGGCg -3'
miRNA:   3'- -CGGCCUA-CugCCGaUAgGCaCCGUUG- -5'
17019 3' -55.3 NC_004333.2 + 41582 0.75 0.210822
Target:  5'- cGCUGG---GCGGCgcgCCGUGGCGGCg -3'
miRNA:   3'- -CGGCCuacUGCCGauaGGCACCGUUG- -5'
17019 3' -55.3 NC_004333.2 + 13895 0.76 0.187219
Target:  5'- gGCCGGcacgggcugcgcGGCGGCUG-CCGUGGCGAUc -3'
miRNA:   3'- -CGGCCua----------CUGCCGAUaGGCACCGUUG- -5'
17019 3' -55.3 NC_004333.2 + 18184 0.77 0.174392
Target:  5'- uGCCGGGUGAUGcGCUcgUCGUGcgcGCGGCa -3'
miRNA:   3'- -CGGCCUACUGC-CGAuaGGCAC---CGUUG- -5'
17019 3' -55.3 NC_004333.2 + 38387 1.1 0.000674
Target:  5'- gGCCGGAUGACGGCUAUCCGUGGCAACc -3'
miRNA:   3'- -CGGCCUACUGCCGAUAGGCACCGUUG- -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.