miRNA display CGI


Results 1 - 20 of 96 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
26028 3' -56.9 NC_005342.2 + 44004 1.09 0.000549
Target:  5'- aACGCCGCCAACAUCGAGACGCUGCUCu -3'
miRNA:   3'- -UGCGGCGGUUGUAGCUCUGCGACGAG- -5'
26028 3' -56.9 NC_005342.2 + 29542 0.87 0.022113
Target:  5'- gACGCCGCCGAUcgCGAGGCGUUGCg- -3'
miRNA:   3'- -UGCGGCGGUUGuaGCUCUGCGACGag -5'
26028 3' -56.9 NC_005342.2 + 3322 0.81 0.060394
Target:  5'- gGCGCgCGCgAcGCAUCGAGACGCaGCUCg -3'
miRNA:   3'- -UGCG-GCGgU-UGUAGCUCUGCGaCGAG- -5'
26028 3' -56.9 NC_005342.2 + 41740 0.77 0.110677
Target:  5'- cGCGCgGCCAACGagCGGGGCG-UGCUCg -3'
miRNA:   3'- -UGCGgCGGUUGUa-GCUCUGCgACGAG- -5'
26028 3' -56.9 NC_005342.2 + 42790 0.76 0.146615
Target:  5'- gACGCCGC--ACAUCGAGACGCga-UCa -3'
miRNA:   3'- -UGCGGCGguUGUAGCUCUGCGacgAG- -5'
26028 3' -56.9 NC_005342.2 + 20736 0.75 0.168335
Target:  5'- cGCGCUGCCgGACAUCGccGACGCgGCUg -3'
miRNA:   3'- -UGCGGCGG-UUGUAGCu-CUGCGaCGAg -5'
26028 3' -56.9 NC_005342.2 + 41131 0.75 0.173012
Target:  5'- cACG-CGCaCAugAUCGAacaGGCGCUGCUCg -3'
miRNA:   3'- -UGCgGCG-GUugUAGCU---CUGCGACGAG- -5'
26028 3' -56.9 NC_005342.2 + 30569 0.74 0.192893
Target:  5'- cGCGCUguGCgAGCAguUCGAuGCGCUGCUCg -3'
miRNA:   3'- -UGCGG--CGgUUGU--AGCUcUGCGACGAG- -5'
26028 3' -56.9 NC_005342.2 + 18492 0.74 0.192893
Target:  5'- cCGCUGCCGGCAcgcCGAcgGACGCUGCa- -3'
miRNA:   3'- uGCGGCGGUUGUa--GCU--CUGCGACGag -5'
26028 3' -56.9 NC_005342.2 + 30820 0.74 0.192893
Target:  5'- gGC-CCGUCAGCGgcgCGAGcUGCUGCUCg -3'
miRNA:   3'- -UGcGGCGGUUGUa--GCUCuGCGACGAG- -5'
26028 3' -56.9 NC_005342.2 + 39560 0.73 0.214749
Target:  5'- aACGUCGgCGGCAccguaUCGGcGACGUUGCUCg -3'
miRNA:   3'- -UGCGGCgGUUGU-----AGCU-CUGCGACGAG- -5'
26028 3' -56.9 NC_005342.2 + 9722 0.73 0.225855
Target:  5'- cGCGUCGCacaGAUcgacaaagaacguGUCGAGGCGCUGCg- -3'
miRNA:   3'- -UGCGGCGg--UUG-------------UAGCUCUGCGACGag -5'
26028 3' -56.9 NC_005342.2 + 20365 0.72 0.241208
Target:  5'- gGCGCCGCgcuauuCGACGUCGGGcaucaccuuuacuuCGCUGUUCa -3'
miRNA:   3'- -UGCGGCG------GUUGUAGCUCu-------------GCGACGAG- -5'
26028 3' -56.9 NC_005342.2 + 45299 0.72 0.245019
Target:  5'- cCGCCGCCGGCGc---GACGCUGCa- -3'
miRNA:   3'- uGCGGCGGUUGUagcuCUGCGACGag -5'
26028 3' -56.9 NC_005342.2 + 45869 0.71 0.278749
Target:  5'- -aGCgCGCCGAauUCGAGGCGaUGCUCg -3'
miRNA:   3'- ugCG-GCGGUUguAGCUCUGCgACGAG- -5'
26028 3' -56.9 NC_005342.2 + 29698 0.71 0.281601
Target:  5'- cUGCCGCCAGCGcCGAaugcgagccccaugcGACGUcGCUCg -3'
miRNA:   3'- uGCGGCGGUUGUaGCU---------------CUGCGaCGAG- -5'
26028 3' -56.9 NC_005342.2 + 38702 0.71 0.285923
Target:  5'- -gGCCGaUCGACccgaacuggcauGUCGAGGCGCUGCa- -3'
miRNA:   3'- ugCGGC-GGUUG------------UAGCUCUGCGACGag -5'
26028 3' -56.9 NC_005342.2 + 32241 0.71 0.293242
Target:  5'- aGCGuUUGCCGACGUCGcgcGGCGC-GCUCg -3'
miRNA:   3'- -UGC-GGCGGUUGUAGCu--CUGCGaCGAG- -5'
26028 3' -56.9 NC_005342.2 + 38115 0.71 0.293242
Target:  5'- gACGCCgGCCAcggucaagacgGCgAUCGAGACGCUuGC-Cg -3'
miRNA:   3'- -UGCGG-CGGU-----------UG-UAGCUCUGCGA-CGaG- -5'
26028 3' -56.9 NC_005342.2 + 5592 0.71 0.300706
Target:  5'- -gGCUGCuCGACGg-GAGACGCUGCg- -3'
miRNA:   3'- ugCGGCG-GUUGUagCUCUGCGACGag -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.