miRNA display CGI


Results 1 - 20 of 62 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
7167 3' -58.2 NC_001900.1 + 47686 0.69 0.382542
Target:  5'- gGCAuCCGACGGUgagugCugGUCGcGGgcGGCg -3'
miRNA:   3'- -CGU-GGCUGCCG-----GugUAGC-CCuuCCGg -5'
7167 3' -58.2 NC_001900.1 + 46840 0.68 0.418466
Target:  5'- gGCAgCGcACGGCC--GUCGGGAAcuGuGCCu -3'
miRNA:   3'- -CGUgGC-UGCCGGugUAGCCCUU--C-CGG- -5'
7167 3' -58.2 NC_001900.1 + 45416 0.66 0.54767
Target:  5'- cGUACCuGAagccuccacCGGCCAUGcCGGGGuaGGGCUc -3'
miRNA:   3'- -CGUGG-CU---------GCCGGUGUaGCCCU--UCCGG- -5'
7167 3' -58.2 NC_001900.1 + 44924 0.68 0.409293
Target:  5'- uCACCGcCGGCCGCuUCGccGGucGGCa -3'
miRNA:   3'- cGUGGCuGCCGGUGuAGC--CCuuCCGg -5'
7167 3' -58.2 NC_001900.1 + 43822 0.7 0.347913
Target:  5'- -aACCGGaacGCCgcuucugGCGUCGGGAAcGGCCa -3'
miRNA:   3'- cgUGGCUgc-CGG-------UGUAGCCCUU-CCGG- -5'
7167 3' -58.2 NC_001900.1 + 43040 0.7 0.340617
Target:  5'- -aGCCGGggagcguccCGG-UACAUCGGGuGAGGCCg -3'
miRNA:   3'- cgUGGCU---------GCCgGUGUAGCCC-UUCCGG- -5'
7167 3' -58.2 NC_001900.1 + 42412 0.66 0.558213
Target:  5'- cGUAUCGGCaggcaGGCCAgGcccgaggggaUCGGGcuGGCCc -3'
miRNA:   3'- -CGUGGCUG-----CCGGUgU----------AGCCCuuCCGG- -5'
7167 3' -58.2 NC_001900.1 + 42331 1.06 0.000861
Target:  5'- -gACCGACGGCCACAUCGGGAAGGCCg -3'
miRNA:   3'- cgUGGCUGCCGGUGUAGCCCUUCCGG- -5'
7167 3' -58.2 NC_001900.1 + 41725 0.66 0.568813
Target:  5'- gGUucuCUGA-GGCCACGUCGGcgucGGAGGUa -3'
miRNA:   3'- -CGu--GGCUgCCGGUGUAGCC----CUUCCGg -5'
7167 3' -58.2 NC_001900.1 + 41229 0.71 0.302121
Target:  5'- -gGCUGACGGCCGCGaCGGuGAuccacgcugcgGGGCg -3'
miRNA:   3'- cgUGGCUGCCGGUGUaGCC-CU-----------UCCGg -5'
7167 3' -58.2 NC_001900.1 + 39450 0.67 0.466127
Target:  5'- cGCACCGugGGCC-----GGGAuacuuGGCg -3'
miRNA:   3'- -CGUGGCugCCGGuguagCCCUu----CCGg -5'
7167 3' -58.2 NC_001900.1 + 38894 0.67 0.516448
Target:  5'- gGCcCUGAUGGCCuCAgCGG--AGGCCg -3'
miRNA:   3'- -CGuGGCUGCCGGuGUaGCCcuUCCGG- -5'
7167 3' -58.2 NC_001900.1 + 38717 0.68 0.446715
Target:  5'- -aGCCuucGCGGCgUACGUCGGGGugcucGGGUCa -3'
miRNA:   3'- cgUGGc--UGCCG-GUGUAGCCCU-----UCCGG- -5'
7167 3' -58.2 NC_001900.1 + 34567 0.71 0.273123
Target:  5'- cCGCCGAUGGCgGC-UCGGGucaggauguauucGGGGUCa -3'
miRNA:   3'- cGUGGCUGCCGgUGuAGCCC-------------UUCCGG- -5'
7167 3' -58.2 NC_001900.1 + 33303 0.67 0.505177
Target:  5'- aGC-UCGACGGUCACAucuUCGGaGAucccgaucgugacGGGCUc -3'
miRNA:   3'- -CGuGGCUGCCGGUGU---AGCC-CU-------------UCCGG- -5'
7167 3' -58.2 NC_001900.1 + 32586 0.74 0.186304
Target:  5'- aGCACCGACucauGGcCCACGUCGaGGAuguGGUUg -3'
miRNA:   3'- -CGUGGCUG----CC-GGUGUAGC-CCUu--CCGG- -5'
7167 3' -58.2 NC_001900.1 + 30474 0.72 0.253991
Target:  5'- gGCACCaACGGCCggcucACGUCGGGcaccagcGGuGCCa -3'
miRNA:   3'- -CGUGGcUGCCGG-----UGUAGCCCu------UC-CGG- -5'
7167 3' -58.2 NC_001900.1 + 28955 0.68 0.456365
Target:  5'- aGCGCCGAC--CCAgGUaCGGGAugauguuGGCCc -3'
miRNA:   3'- -CGUGGCUGccGGUgUA-GCCCUu------CCGG- -5'
7167 3' -58.2 NC_001900.1 + 28255 0.73 0.20157
Target:  5'- uGCAgUCGACGGaUCAgGUcCGGGAGGGCUc -3'
miRNA:   3'- -CGU-GGCUGCC-GGUgUA-GCCCUUCCGG- -5'
7167 3' -58.2 NC_001900.1 + 27574 0.69 0.365366
Target:  5'- gGCugCGAUGGCCGCGaacgcCGaGAGGGUg -3'
miRNA:   3'- -CGugGCUGCCGGUGUa----GCcCUUCCGg -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.