miRNA display CGI


Results 1 - 15 of 15 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
11513 5' -57.3 NC_003085.1 + 8966 0.66 0.593767
Target:  5'- gGCCUUGGUGGCGgugcGCAU-GCCagacgCGg -3'
miRNA:   3'- -CGGGACCACCGCa---UGUAgUGGga---GCa -5'
11513 5' -57.3 NC_003085.1 + 14392 0.66 0.582905
Target:  5'- gGCCCgGGagaGGCGggagcGCAUCGCCUUgGa -3'
miRNA:   3'- -CGGGaCCa--CCGCa----UGUAGUGGGAgCa -5'
11513 5' -57.3 NC_003085.1 + 16126 0.66 0.572083
Target:  5'- cGCCCgucGUGGCGcACGUCccauaCCUCGc -3'
miRNA:   3'- -CGGGac-CACCGCaUGUAGug---GGAGCa -5'
11513 5' -57.3 NC_003085.1 + 32184 0.66 0.572083
Target:  5'- cGCCagUGGUGGCGcGCGUgcuucaacgCGCCCUgCGc -3'
miRNA:   3'- -CGGg-ACCACCGCaUGUA---------GUGGGA-GCa -5'
11513 5' -57.3 NC_003085.1 + 7459 0.66 0.550593
Target:  5'- uGCCCcGGUGG---GCGUCGCgCCUCa- -3'
miRNA:   3'- -CGGGaCCACCgcaUGUAGUG-GGAGca -5'
11513 5' -57.3 NC_003085.1 + 11119 0.67 0.529357
Target:  5'- cGCCUucguUGG-GGCGcGCGUCGuCUCUCGg -3'
miRNA:   3'- -CGGG----ACCaCCGCaUGUAGU-GGGAGCa -5'
11513 5' -57.3 NC_003085.1 + 3297 0.67 0.508429
Target:  5'- gGCCCaGGUaGCGccgGCAUCGCCUUgCGg -3'
miRNA:   3'- -CGGGaCCAcCGCa--UGUAGUGGGA-GCa -5'
11513 5' -57.3 NC_003085.1 + 30006 0.67 0.497068
Target:  5'- gGCCCUGGgcggccuUGGCG-ACGUCGUCCgCGg -3'
miRNA:   3'- -CGGGACC-------ACCGCaUGUAGUGGGaGCa -5'
11513 5' -57.3 NC_003085.1 + 12181 0.68 0.457765
Target:  5'- gGCCUcGGgGGCGUccgacuugcgcGCGUCACCCgcccCGUa -3'
miRNA:   3'- -CGGGaCCaCCGCA-----------UGUAGUGGGa---GCA- -5'
11513 5' -57.3 NC_003085.1 + 25243 0.69 0.373977
Target:  5'- cGCCCUGGUgcgcuccgcGGCGgGCGUCGUCgUCGg -3'
miRNA:   3'- -CGGGACCA---------CCGCaUGUAGUGGgAGCa -5'
11513 5' -57.3 NC_003085.1 + 16223 0.71 0.308732
Target:  5'- uGCuCCUcaucgcGGcUGGCGU-CGUCAUCCUCGUg -3'
miRNA:   3'- -CG-GGA------CC-ACCGCAuGUAGUGGGAGCA- -5'
11513 5' -57.3 NC_003085.1 + 15081 0.72 0.265749
Target:  5'- gGCCCUGGaggagGGaCGgcGCcUCACCCUCGa -3'
miRNA:   3'- -CGGGACCa----CC-GCa-UGuAGUGGGAGCa -5'
11513 5' -57.3 NC_003085.1 + 19693 0.72 0.259075
Target:  5'- gGCCCUGGaGGCGcgcggcgGCAUCugcACCUUCGa -3'
miRNA:   3'- -CGGGACCaCCGCa------UGUAG---UGGGAGCa -5'
11513 5' -57.3 NC_003085.1 + 28513 0.73 0.221874
Target:  5'- cGCCCUGGcGGCgGUAUGUCcAgCCUCGa -3'
miRNA:   3'- -CGGGACCaCCG-CAUGUAG-UgGGAGCa -5'
11513 5' -57.3 NC_003085.1 + 1240 1.08 0.000637
Target:  5'- uGCCCUGGUGGCGUACAUCACCCUCGUc -3'
miRNA:   3'- -CGGGACCACCGCAUGUAGUGGGAGCA- -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.