miRNA display CGI


Results 1 - 7 of 7 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
1262 3' -54.6 NC_001317.1 + 13929 0.67 0.511346
Target:  5'- uGCCUC-CG-CCUCAGCAagaAGUGUu -3'
miRNA:   3'- -CGGAGuGCaGGAGUCGUaagUCGCGu -5'
1262 3' -54.6 NC_001317.1 + 5166 0.67 0.489436
Target:  5'- cGCCUCgaccugugggcGCGUUUUCAGgAcuUUCAGCGUc -3'
miRNA:   3'- -CGGAG-----------UGCAGGAGUCgU--AAGUCGCGu -5'
1262 3' -54.6 NC_001317.1 + 12821 0.67 0.478646
Target:  5'- -gCUCGCGUCCUgAGCGguauaUUUAGCauuaGCAa -3'
miRNA:   3'- cgGAGUGCAGGAgUCGU-----AAGUCG----CGU- -5'
1262 3' -54.6 NC_001317.1 + 10568 0.67 0.478646
Target:  5'- aGCCUgaGCG-CCggguuuugCGGCAUaucaaUCAGCGCAg -3'
miRNA:   3'- -CGGAg-UGCaGGa-------GUCGUA-----AGUCGCGU- -5'
1262 3' -54.6 NC_001317.1 + 28057 0.69 0.378017
Target:  5'- uGCCUUuuuccgggucaAUGgCCUCAGCAUggaAGCGCGc -3'
miRNA:   3'- -CGGAG-----------UGCaGGAGUCGUAag-UCGCGU- -5'
1262 3' -54.6 NC_001317.1 + 9737 0.69 0.368761
Target:  5'- uGCCUCugGUCUUUAGCcgcgccaaaUCAcGCGCc -3'
miRNA:   3'- -CGGAGugCAGGAGUCGua-------AGU-CGCGu -5'
1262 3' -54.6 NC_001317.1 + 11338 1.1 0.000388
Target:  5'- gGCCUCACGUCCUCAGCAUUCAGCGCAu -3'
miRNA:   3'- -CGGAGUGCAGGAGUCGUAAGUCGCGU- -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.