miRNA display CGI


Results 21 - 39 of 39 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
1436 3' -57.4 NC_001335.1 + 33338 0.68 0.459177
Target:  5'- cACCUCGGUguucggagcgaagaGAUCCuuCUCGAUCUCGu -3'
miRNA:   3'- cUGGAGCCG--------------UUGGGu-GAGCUGGAGCu -5'
1436 3' -57.4 NC_001335.1 + 30185 0.68 0.452337
Target:  5'- cGCCgauGGCGAUCCGCaCGuCCUCGAu -3'
miRNA:   3'- cUGGag-CCGUUGGGUGaGCuGGAGCU- -5'
1436 3' -57.4 NC_001335.1 + 31665 0.68 0.452337
Target:  5'- gGAUCUCGGC-AUCCg--CGGCCUCGu -3'
miRNA:   3'- -CUGGAGCCGuUGGGugaGCUGGAGCu -5'
1436 3' -57.4 NC_001335.1 + 46383 0.68 0.442663
Target:  5'- aGCCUCGG--ACCCGgUaCGACCUCa- -3'
miRNA:   3'- cUGGAGCCguUGGGUgA-GCUGGAGcu -5'
1436 3' -57.4 NC_001335.1 + 30013 0.69 0.433107
Target:  5'- -uCUUCGaGCGagugcccgaACCCGC-CGGCCUCGAa -3'
miRNA:   3'- cuGGAGC-CGU---------UGGGUGaGCUGGAGCU- -5'
1436 3' -57.4 NC_001335.1 + 5780 0.69 0.430264
Target:  5'- aGCCUCGGCAcucuGCCUggccgcgagcaccuGCUCGAcgcCCUUGGu -3'
miRNA:   3'- cUGGAGCCGU----UGGG--------------UGAGCU---GGAGCU- -5'
1436 3' -57.4 NC_001335.1 + 4100 0.69 0.423672
Target:  5'- gGAUCUUGuCGGCCUcuucggACUCGACCUUGAu -3'
miRNA:   3'- -CUGGAGCcGUUGGG------UGAGCUGGAGCU- -5'
1436 3' -57.4 NC_001335.1 + 49301 0.69 0.402448
Target:  5'- cGACUggcgCGGCAACCCgagcgcguacgacgACgaggucggUGACCUCGAa -3'
miRNA:   3'- -CUGGa---GCCGUUGGG--------------UGa-------GCUGGAGCU- -5'
1436 3' -57.4 NC_001335.1 + 32370 0.7 0.344616
Target:  5'- -cCCUUGGCucguuACCgGCuucUCGACCUCGGu -3'
miRNA:   3'- cuGGAGCCGu----UGGgUG---AGCUGGAGCU- -5'
1436 3' -57.4 NC_001335.1 + 5469 0.7 0.344615
Target:  5'- uACUUCGGgGuuguCCCGCUCGAUgUCGGc -3'
miRNA:   3'- cUGGAGCCgUu---GGGUGAGCUGgAGCU- -5'
1436 3' -57.4 NC_001335.1 + 37994 0.71 0.32855
Target:  5'- cACCgUCGGCAGCCCacacaGCUCGGCggUGAu -3'
miRNA:   3'- cUGG-AGCCGUUGGG-----UGAGCUGgaGCU- -5'
1436 3' -57.4 NC_001335.1 + 39619 0.72 0.290837
Target:  5'- -cCCUCGGCAACUCAgUCGGCaCcCGGc -3'
miRNA:   3'- cuGGAGCCGUUGGGUgAGCUG-GaGCU- -5'
1436 3' -57.4 NC_001335.1 + 23336 0.72 0.290119
Target:  5'- aGCUUCGGCAGCCCGuaccgcuCUCGGaaUCGAu -3'
miRNA:   3'- cUGGAGCCGUUGGGU-------GAGCUggAGCU- -5'
1436 3' -57.4 NC_001335.1 + 47330 0.72 0.283714
Target:  5'- aGGCUUCGGcCGACCCAaucacgUCGACCagCGAg -3'
miRNA:   3'- -CUGGAGCC-GUUGGGUg-----AGCUGGa-GCU- -5'
1436 3' -57.4 NC_001335.1 + 1776 0.74 0.208768
Target:  5'- uGACCaUCGGCGACUCGCU-GAUgUCGAg -3'
miRNA:   3'- -CUGG-AGCCGUUGGGUGAgCUGgAGCU- -5'
1436 3' -57.4 NC_001335.1 + 11519 0.74 0.192913
Target:  5'- cGCUUCGGCGaaguaguccuggGCCUGCUCGGgCUCGAg -3'
miRNA:   3'- cUGGAGCCGU------------UGGGUGAGCUgGAGCU- -5'
1436 3' -57.4 NC_001335.1 + 2350 0.76 0.155704
Target:  5'- cGACCUCGcUGGCCCGCUgGGCUUCGGc -3'
miRNA:   3'- -CUGGAGCcGUUGGGUGAgCUGGAGCU- -5'
1436 3' -57.4 NC_001335.1 + 1541 0.83 0.047821
Target:  5'- cACUUCGGCGACCUACUCGACUccggUCGAc -3'
miRNA:   3'- cUGGAGCCGUUGGGUGAGCUGG----AGCU- -5'
1436 3' -57.4 NC_001335.1 + 3211 1.09 0.000621
Target:  5'- cGACCUCGGCAACCCACUCGACCUCGAg -3'
miRNA:   3'- -CUGGAGCCGUUGGGUGAGCUGGAGCU- -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.