miRNA display CGI


Results 1 - 20 of 37 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
13280 3' -58 NC_003409.1 + 12590 0.73 0.420522
Target:  5'- cACCaACCCAGAGGCGG--UUCCgauggGGGCa -3'
miRNA:   3'- -UGG-UGGGUCUCCGCUcuAAGG-----UCCGg -5'
13280 3' -58 NC_003409.1 + 22147 0.66 0.781158
Target:  5'- aACCGCCCcugcggucacGGGGGCGuGGAUUUUuugggguguuGGCCu -3'
miRNA:   3'- -UGGUGGG----------UCUCCGC-UCUAAGGu---------CCGG- -5'
13280 3' -58 NC_003409.1 + 23191 0.66 0.825344
Target:  5'- -gCGCCCGGGuGCacGGGGUcaccUCCAGGUCa -3'
miRNA:   3'- ugGUGGGUCUcCG--CUCUA----AGGUCCGG- -5'
13280 3' -58 NC_003409.1 + 24162 1.1 0.001381
Target:  5'- aACCACCCAGAGGCGAGAUUCCAGGCCc -3'
miRNA:   3'- -UGGUGGGUCUCCGCUCUAAGGUCCGG- -5'
13280 3' -58 NC_003409.1 + 24229 0.67 0.733672
Target:  5'- aGCCACCCAuguucuGGGGCGcgccagcGGUgggCgGGGCCc -3'
miRNA:   3'- -UGGUGGGU------CUCCGCu------CUAa--GgUCCGG- -5'
13280 3' -58 NC_003409.1 + 24594 0.69 0.62309
Target:  5'- cGCCACCCuccccGGAGG-GGGAUcCCGGcgcGCCa -3'
miRNA:   3'- -UGGUGGG-----UCUCCgCUCUAaGGUC---CGG- -5'
13280 3' -58 NC_003409.1 + 24654 0.69 0.62309
Target:  5'- cGCCACCCuccccGGAGG-GGGAUcCCGGcgcGCCa -3'
miRNA:   3'- -UGGUGGG-----UCUCCgCUCUAaGGUC---CGG- -5'
13280 3' -58 NC_003409.1 + 24714 0.69 0.62309
Target:  5'- cGCCACCCuccccGGAGG-GGGAUcCCGGcgcGCCa -3'
miRNA:   3'- -UGGUGGG-----UCUCCgCUCUAaGGUC---CGG- -5'
13280 3' -58 NC_003409.1 + 24774 0.69 0.62309
Target:  5'- cGCCACCCuccccGGAGG-GGGAUcCCGGcgcGCCa -3'
miRNA:   3'- -UGGUGGG-----UCUCCgCUCUAaGGUC---CGG- -5'
13280 3' -58 NC_003409.1 + 24834 0.69 0.62309
Target:  5'- cGCCACCCuccccGGAGG-GGGAUcCCGGcgcGCCa -3'
miRNA:   3'- -UGGUGGG-----UCUCCgCUCUAaGGUC---CGG- -5'
13280 3' -58 NC_003409.1 + 27754 0.66 0.825344
Target:  5'- uGCCACCC--GGGCGAaaacaagCCGGGUa -3'
miRNA:   3'- -UGGUGGGucUCCGCUcuaa---GGUCCGg -5'
13280 3' -58 NC_003409.1 + 34906 0.74 0.378181
Target:  5'- aACCGaagauggaCAGAGGCGGGAagaUUCUGGGCCc -3'
miRNA:   3'- -UGGUgg------GUCUCCGCUCU---AAGGUCCGG- -5'
13280 3' -58 NC_003409.1 + 41534 0.69 0.643452
Target:  5'- aGCUGCCCAGAGucCGcGcgUCCGuGGCCg -3'
miRNA:   3'- -UGGUGGGUCUCc-GCuCuaAGGU-CCGG- -5'
13280 3' -58 NC_003409.1 + 43983 0.68 0.694059
Target:  5'- cUCAgUCAGGGGCGuAGAaUCCccGGCCa -3'
miRNA:   3'- uGGUgGGUCUCCGC-UCUaAGGu-CCGG- -5'
13280 3' -58 NC_003409.1 + 48796 0.67 0.77189
Target:  5'- uUgGgCCAGGGGUcacAGuUUCCAGGCCg -3'
miRNA:   3'- uGgUgGGUCUCCGc--UCuAAGGUCCGG- -5'
13280 3' -58 NC_003409.1 + 51666 0.66 0.808135
Target:  5'- cACCACCaaccGGCGGGAUgacCCuGGCg -3'
miRNA:   3'- -UGGUGGgucuCCGCUCUAa--GGuCCGg -5'
13280 3' -58 NC_003409.1 + 52337 0.71 0.542479
Target:  5'- cACUaaGCCCGGuGGCGGGGgcaCGGGCUc -3'
miRNA:   3'- -UGG--UGGGUCuCCGCUCUaagGUCCGG- -5'
13280 3' -58 NC_003409.1 + 52575 0.67 0.724861
Target:  5'- gGCgGCCaAGGGGCGGGGacguggcagcucuuaUCCAGGCa -3'
miRNA:   3'- -UGgUGGgUCUCCGCUCUa--------------AGGUCCGg -5'
13280 3' -58 NC_003409.1 + 63974 0.73 0.420522
Target:  5'- gACCACUCAGGGGCucAGGcgCCAGGUg -3'
miRNA:   3'- -UGGUGGGUCUCCGc-UCUaaGGUCCGg -5'
13280 3' -58 NC_003409.1 + 68679 0.74 0.370064
Target:  5'- gGCCACCaagAGAGGCcagcgGAGAUggaugCUGGGCCg -3'
miRNA:   3'- -UGGUGGg--UCUCCG-----CUCUAa----GGUCCGG- -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.