miRNA display CGI


Results 1 - 20 of 51 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
19276 3' -58.9 NC_004685.1 + 131 0.69 0.439137
Target:  5'- cCGGCGcgggcgcGGCU-GCCGGGGUgGcCGGGg -3'
miRNA:   3'- aGCCGU-------UCGAgCGGCUCCAgCaGCCU- -5'
19276 3' -58.9 NC_004685.1 + 417 0.69 0.419045
Target:  5'- gCGGCGAGCUCggggcuaagcaucaGCCGcGGUCGgugaggUCGGc -3'
miRNA:   3'- aGCCGUUCGAG--------------CGGCuCCAGC------AGCCu -5'
19276 3' -58.9 NC_004685.1 + 2342 0.66 0.578866
Target:  5'- gCGGCGcaCgUCGCCGAGGUUGggcacccCGGGc -3'
miRNA:   3'- aGCCGUucG-AGCGGCUCCAGCa------GCCU- -5'
19276 3' -58.9 NC_004685.1 + 3215 0.66 0.610198
Target:  5'- gCGGCGgaaaugccggGGCgggGUCGGGGUCGggcCGGAc -3'
miRNA:   3'- aGCCGU----------UCGag-CGGCUCCAGCa--GCCU- -5'
19276 3' -58.9 NC_004685.1 + 4158 0.69 0.440063
Target:  5'- cUCGGCGAGCUUGCCGAcGaCGcccgccagcUCGGc -3'
miRNA:   3'- -AGCCGUUCGAGCGGCUcCaGC---------AGCCu -5'
19276 3' -58.9 NC_004685.1 + 10228 0.74 0.229558
Target:  5'- cCGGUcuGGC-CGCCGGGGU-GUCGGAu -3'
miRNA:   3'- aGCCGu-UCGaGCGGCUCCAgCAGCCU- -5'
19276 3' -58.9 NC_004685.1 + 12642 0.68 0.487723
Target:  5'- cCGGCu-GCUCGCCGccgggcGGGUCaaggugaagGUCGGc -3'
miRNA:   3'- aGCCGuuCGAGCGGC------UCCAG---------CAGCCu -5'
19276 3' -58.9 NC_004685.1 + 12814 0.68 0.47799
Target:  5'- cUGGCGGGCcgUGCCGucgacaagaAGGUUGUCGcGAc -3'
miRNA:   3'- aGCCGUUCGa-GCGGC---------UCCAGCAGC-CU- -5'
19276 3' -58.9 NC_004685.1 + 14210 0.67 0.53768
Target:  5'- gUCGcCAAGCggcUGUCGGuGUCGUCGGAg -3'
miRNA:   3'- -AGCcGUUCGa--GCGGCUcCAGCAGCCU- -5'
19276 3' -58.9 NC_004685.1 + 14410 0.66 0.620687
Target:  5'- gCGGCAgcgucAGCUgcgCGCCGAGGcCGagGcGAa -3'
miRNA:   3'- aGCCGU-----UCGA---GCGGCUCCaGCagC-CU- -5'
19276 3' -58.9 NC_004685.1 + 14707 0.67 0.544822
Target:  5'- -gGGCAAGCUgcacgccgacacggUGaCCGAGGU-GUCGGu -3'
miRNA:   3'- agCCGUUCGA--------------GC-GGCUCCAgCAGCCu -5'
19276 3' -58.9 NC_004685.1 + 15080 0.72 0.286216
Target:  5'- cCGGgGAGCUgcucggUGCCGAGGUcCGcUCGGGu -3'
miRNA:   3'- aGCCgUUCGA------GCGGCUCCA-GC-AGCCU- -5'
19276 3' -58.9 NC_004685.1 + 17263 0.67 0.547892
Target:  5'- cCGGCAucAGCUgGa--GGGUCGUCGGc -3'
miRNA:   3'- aGCCGU--UCGAgCggcUCCAGCAGCCu -5'
19276 3' -58.9 NC_004685.1 + 19342 0.69 0.449386
Target:  5'- aUCGGCAAGaugCGCCGcGGcgaaGUCGGc -3'
miRNA:   3'- -AGCCGUUCga-GCGGCuCCag--CAGCCu -5'
19276 3' -58.9 NC_004685.1 + 19695 0.67 0.547892
Target:  5'- gCGGCcguGGCggGCCGAGG-CGuUCGGc -3'
miRNA:   3'- aGCCGu--UCGagCGGCUCCaGC-AGCCu -5'
19276 3' -58.9 NC_004685.1 + 20086 0.66 0.610198
Target:  5'- gUCGGCcAGCcCGCCuacGAGGgcgCG-CGGGu -3'
miRNA:   3'- -AGCCGuUCGaGCGG---CUCCa--GCaGCCU- -5'
19276 3' -58.9 NC_004685.1 + 25895 0.68 0.458818
Target:  5'- -aGGCcAGCgCGgUGAGGUCGUCGa- -3'
miRNA:   3'- agCCGuUCGaGCgGCUCCAGCAGCcu -5'
19276 3' -58.9 NC_004685.1 + 25982 0.66 0.58928
Target:  5'- cUUGGUGAGCUCGC--GGGacaGUCGGGc -3'
miRNA:   3'- -AGCCGUUCGAGCGgcUCCag-CAGCCU- -5'
19276 3' -58.9 NC_004685.1 + 29052 0.67 0.568492
Target:  5'- gUCGcGCAGauGCUCGCCGAacuucaccaGGUCGUagaUGGu -3'
miRNA:   3'- -AGC-CGUU--CGAGCGGCU---------CCAGCA---GCCu -5'
19276 3' -58.9 NC_004685.1 + 31755 0.66 0.577826
Target:  5'- cCGGCcAGCUccgaccacccgccCGCUGGGGUgGaCGGAc -3'
miRNA:   3'- aGCCGuUCGA-------------GCGGCUCCAgCaGCCU- -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.