miRNA display CGI


Results 1 - 20 of 22 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
26219 3' -58.5 NC_005342.2 + 41729 0.66 0.503365
Target:  5'- --uGCG-CGUGaaGCGCGcggccaacgaGCGGGGCGu -3'
miRNA:   3'- uauCGCaGCACgaCGCGC----------UGCUCCGC- -5'
26219 3' -58.5 NC_005342.2 + 22945 0.66 0.482872
Target:  5'- -cGGCGcacUCGuUGCgaucaGCGUGACG-GGCGg -3'
miRNA:   3'- uaUCGC---AGC-ACGa----CGCGCUGCuCCGC- -5'
26219 3' -58.5 NC_005342.2 + 3960 0.66 0.482872
Target:  5'- -gGGCG-CGUugUGCGCGACGAacaGGCc -3'
miRNA:   3'- uaUCGCaGCAcgACGCGCUGCU---CCGc -5'
26219 3' -58.5 NC_005342.2 + 37141 0.67 0.414608
Target:  5'- -cGGCGUgcaCGUGUacugcgGCGUGACGAacGGCGc -3'
miRNA:   3'- uaUCGCA---GCACGa-----CGCGCUGCU--CCGC- -5'
26219 3' -58.5 NC_005342.2 + 28643 0.68 0.396216
Target:  5'- --uGcCGUCgGUGCgcagcgGCGCGcCGAGGCa -3'
miRNA:   3'- uauC-GCAG-CACGa-----CGCGCuGCUCCGc -5'
26219 3' -58.5 NC_005342.2 + 11688 0.68 0.378358
Target:  5'- -gGGCGgCGUGCuggcguccUGCGCGAUGuccGGCa -3'
miRNA:   3'- uaUCGCaGCACG--------ACGCGCUGCu--CCGc -5'
26219 3' -58.5 NC_005342.2 + 3874 0.68 0.369634
Target:  5'- cAUGGUGUCGUGgUaGCGCcaGGCGGcagcGGCGg -3'
miRNA:   3'- -UAUCGCAGCACgA-CGCG--CUGCU----CCGC- -5'
26219 3' -58.5 NC_005342.2 + 20640 0.68 0.352603
Target:  5'- -gAGCGUCGcaacggcGCUGCGCcaguGGCagGAGGCGc -3'
miRNA:   3'- uaUCGCAGCa------CGACGCG----CUG--CUCCGC- -5'
26219 3' -58.5 NC_005342.2 + 15118 0.69 0.344298
Target:  5'- uUGGCGUCG-GUUGaguuGCGGCGAGcgaGCGg -3'
miRNA:   3'- uAUCGCAGCaCGACg---CGCUGCUC---CGC- -5'
26219 3' -58.5 NC_005342.2 + 3968 0.69 0.336135
Target:  5'- -cGGCGUUuagcUGCUGCGUGACcucaAGGCGc -3'
miRNA:   3'- uaUCGCAGc---ACGACGCGCUGc---UCCGC- -5'
26219 3' -58.5 NC_005342.2 + 17935 0.69 0.328114
Target:  5'- gGUGGCGUCGcag-GUGCGACGGcGGCc -3'
miRNA:   3'- -UAUCGCAGCacgaCGCGCUGCU-CCGc -5'
26219 3' -58.5 NC_005342.2 + 30338 0.69 0.320235
Target:  5'- -cAG-GUCGUGCagcaGCGCGGCaAGGCGc -3'
miRNA:   3'- uaUCgCAGCACGa---CGCGCUGcUCCGC- -5'
26219 3' -58.5 NC_005342.2 + 45674 0.69 0.3125
Target:  5'- -gAGCGgauGUGU--CGCGGCGAGGCGu -3'
miRNA:   3'- uaUCGCag-CACGacGCGCUGCUCCGC- -5'
26219 3' -58.5 NC_005342.2 + 15882 0.7 0.290146
Target:  5'- ---aCGUCGUGCUGCGC-ACGcuaucGGGCa -3'
miRNA:   3'- uaucGCAGCACGACGCGcUGC-----UCCGc -5'
26219 3' -58.5 NC_005342.2 + 16930 0.7 0.275952
Target:  5'- -gGGCGcCGUGCUcgGCGuCGGCGcAGGUGc -3'
miRNA:   3'- uaUCGCaGCACGA--CGC-GCUGC-UCCGC- -5'
26219 3' -58.5 NC_005342.2 + 1105 0.7 0.262319
Target:  5'- -cGGUGcCGUGCUgcGCGCGACGuuGCa -3'
miRNA:   3'- uaUCGCaGCACGA--CGCGCUGCucCGc -5'
26219 3' -58.5 NC_005342.2 + 4150 0.71 0.249238
Target:  5'- --cGCGcUCGUGCUGCaGCGGCGuGuGCu -3'
miRNA:   3'- uauCGC-AGCACGACG-CGCUGCuC-CGc -5'
26219 3' -58.5 NC_005342.2 + 29591 0.72 0.207663
Target:  5'- gGUAGuCGUCGgcgaagcGCUGCGCGAUcGGGCc -3'
miRNA:   3'- -UAUC-GCAGCa------CGACGCGCUGcUCCGc -5'
26219 3' -58.5 NC_005342.2 + 1833 0.72 0.190226
Target:  5'- -cGGCGUCGUGCgguucugGCGCGccuggcccggauugGCGGGGUc -3'
miRNA:   3'- uaUCGCAGCACGa------CGCGC--------------UGCUCCGc -5'
26219 3' -58.5 NC_005342.2 + 8888 0.74 0.163128
Target:  5'- uUGGCGUCGa--UGCGCGACGcGGCu -3'
miRNA:   3'- uAUCGCAGCacgACGCGCUGCuCCGc -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.