miRNA display CGI


Results 1 - 20 of 27 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
16084 3' -57.7 NC_004065.1 + 197813 0.66 0.907956
Target:  5'- --cGCCCgcGGCGCCAcguUG-GGGUCGUc -3'
miRNA:   3'- uguCGGGa-UCGCGGU---ACuCCUAGCGa -5'
16084 3' -57.7 NC_004065.1 + 55776 0.66 0.907956
Target:  5'- gGCGGUCUcGGCGCCGaGcAGGcgAUCGCg -3'
miRNA:   3'- -UGUCGGGaUCGCGGUaC-UCC--UAGCGa -5'
16084 3' -57.7 NC_004065.1 + 33741 0.66 0.907956
Target:  5'- uCGGCCC-AGCGCCuUGcAGGAgUCGg- -3'
miRNA:   3'- uGUCGGGaUCGCGGuAC-UCCU-AGCga -5'
16084 3' -57.7 NC_004065.1 + 200967 0.66 0.901883
Target:  5'- gGCGGCUCcaggaucgguGCGUgGUGAcGGGUCGCg -3'
miRNA:   3'- -UGUCGGGau--------CGCGgUACU-CCUAGCGa -5'
16084 3' -57.7 NC_004065.1 + 200330 0.66 0.901883
Target:  5'- cCAGCCCgucggGGCGCC--GAGGcUCaGCa -3'
miRNA:   3'- uGUCGGGa----UCGCGGuaCUCCuAG-CGa -5'
16084 3' -57.7 NC_004065.1 + 135659 0.66 0.89559
Target:  5'- cGCGGCCgUAacgcGCGUCggGGGGcUCGCg -3'
miRNA:   3'- -UGUCGGgAU----CGCGGuaCUCCuAGCGa -5'
16084 3' -57.7 NC_004065.1 + 145931 0.66 0.882349
Target:  5'- uGCAGaCCCUGGcCGCCcUGAcGGUCGg- -3'
miRNA:   3'- -UGUC-GGGAUC-GCGGuACUcCUAGCga -5'
16084 3' -57.7 NC_004065.1 + 227038 0.66 0.882349
Target:  5'- gAUGGUUCgucGGCGCCA-GAGaGGUCGCUu -3'
miRNA:   3'- -UGUCGGGa--UCGCGGUaCUC-CUAGCGA- -5'
16084 3' -57.7 NC_004065.1 + 195661 0.66 0.882349
Target:  5'- gGCAGCCg-AGCGgCG-GAGGGUgGCg -3'
miRNA:   3'- -UGUCGGgaUCGCgGUaCUCCUAgCGa -5'
16084 3' -57.7 NC_004065.1 + 132876 0.67 0.853369
Target:  5'- uCGGCUUgcGCgGCCA-GAGGGUCGCc -3'
miRNA:   3'- uGUCGGGauCG-CGGUaCUCCUAGCGa -5'
16084 3' -57.7 NC_004065.1 + 83835 0.67 0.845633
Target:  5'- gACGGagaaCUUGGCGCCcacggcgGAGGGcUCGCUg -3'
miRNA:   3'- -UGUCg---GGAUCGCGGua-----CUCCU-AGCGA- -5'
16084 3' -57.7 NC_004065.1 + 94940 0.67 0.845633
Target:  5'- aGCAGCCgacuaCUGGCGCUgcGGGGccCGCUc -3'
miRNA:   3'- -UGUCGG-----GAUCGCGGuaCUCCuaGCGA- -5'
16084 3' -57.7 NC_004065.1 + 224283 0.67 0.837712
Target:  5'- aGCAGCgCUAGCGCguUGccGAUCaGCa -3'
miRNA:   3'- -UGUCGgGAUCGCGguACucCUAG-CGa -5'
16084 3' -57.7 NC_004065.1 + 126476 0.67 0.829614
Target:  5'- -aAGCCCU-GCGCgAUGuuGGcgCGCUg -3'
miRNA:   3'- ugUCGGGAuCGCGgUACu-CCuaGCGA- -5'
16084 3' -57.7 NC_004065.1 + 198984 0.67 0.829614
Target:  5'- aACAGaCuCCUGGCGCUcgGcAGGGcCGCg -3'
miRNA:   3'- -UGUC-G-GGAUCGCGGuaC-UCCUaGCGa -5'
16084 3' -57.7 NC_004065.1 + 30632 0.68 0.792935
Target:  5'- aGCGGCaCCUGGgacgagauggacgaCGCCAUGAGGAagaCGUUc -3'
miRNA:   3'- -UGUCG-GGAUC--------------GCGGUACUCCUa--GCGA- -5'
16084 3' -57.7 NC_004065.1 + 183716 0.68 0.777695
Target:  5'- gUAGCCCUcguaGGCGCCcUGAGacagguccaGGUCGCc -3'
miRNA:   3'- uGUCGGGA----UCGCGGuACUC---------CUAGCGa -5'
16084 3' -57.7 NC_004065.1 + 137962 0.68 0.776787
Target:  5'- cGCGGCCCUccgAGCGCgCGUGAGaugccucGAgCGCg -3'
miRNA:   3'- -UGUCGGGA---UCGCG-GUACUC-------CUaGCGa -5'
16084 3' -57.7 NC_004065.1 + 168596 0.69 0.771313
Target:  5'- cCGGCCCUggguaggGGCcucuacucgaccgucGUCAUGAuGGAUCGCUg -3'
miRNA:   3'- uGUCGGGA-------UCG---------------CGGUACU-CCUAGCGA- -5'
16084 3' -57.7 NC_004065.1 + 99507 0.7 0.711621
Target:  5'- -gGGuCCCUGGCGCgCAcGAGGAggacgCGCg -3'
miRNA:   3'- ugUC-GGGAUCGCG-GUaCUCCUa----GCGa -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.