miRNA display CGI


Results 1 - 20 of 23 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
7691 3' -56.6 NC_001973.1 + 6847 0.66 0.88929
Target:  5'- gAGUgCGCUCGAC-GGAGgGGCUGagccgcgaGGAg -3'
miRNA:   3'- -UCGgGCGAGUUGuUCUCgCUGAC--------CCU- -5'
7691 3' -56.6 NC_001973.1 + 61648 0.66 0.882404
Target:  5'- cGCgCCGCU--GCGAGAGCaGCUGGc- -3'
miRNA:   3'- uCG-GGCGAguUGUUCUCGcUGACCcu -5'
7691 3' -56.6 NC_001973.1 + 44591 0.66 0.882404
Target:  5'- uAGCCCGCggCGGCGGcGAGCgGGCUcGGc -3'
miRNA:   3'- -UCGGGCGa-GUUGUU-CUCG-CUGAcCCu -5'
7691 3' -56.6 NC_001973.1 + 83871 0.66 0.860433
Target:  5'- cGCCCGCgcgCGGCGcGAGCu-CaGGGAg -3'
miRNA:   3'- uCGGGCGa--GUUGUuCUCGcuGaCCCU- -5'
7691 3' -56.6 NC_001973.1 + 28932 0.67 0.85269
Target:  5'- gGGCuuGCacgCGGCuGGGGCGGCagcgGGGGc -3'
miRNA:   3'- -UCGggCGa--GUUGuUCUCGCUGa---CCCU- -5'
7691 3' -56.6 NC_001973.1 + 146121 0.67 0.85269
Target:  5'- gAGCCgGCUCG---GGAGCgGGCcGGGGu -3'
miRNA:   3'- -UCGGgCGAGUuguUCUCG-CUGaCCCU- -5'
7691 3' -56.6 NC_001973.1 + 53402 0.67 0.844748
Target:  5'- cGCCCGC-CGGCAcgggcGGAGCG-CcGGGc -3'
miRNA:   3'- uCGGGCGaGUUGU-----UCUCGCuGaCCCu -5'
7691 3' -56.6 NC_001973.1 + 127006 0.67 0.844748
Target:  5'- uGGCCaCGCUgucugaAGCAAGGGUGugUGGc- -3'
miRNA:   3'- -UCGG-GCGAg-----UUGUUCUCGCugACCcu -5'
7691 3' -56.6 NC_001973.1 + 41783 0.67 0.844748
Target:  5'- uGCCCGagaaCGGCGGGcGCGAgUGGGu -3'
miRNA:   3'- uCGGGCga--GUUGUUCuCGCUgACCCu -5'
7691 3' -56.6 NC_001973.1 + 51459 0.67 0.819793
Target:  5'- gAGCCCGggCgAGCucGAGCGGCcGGGu -3'
miRNA:   3'- -UCGGGCgaG-UUGuuCUCGCUGaCCCu -5'
7691 3' -56.6 NC_001973.1 + 111802 0.67 0.819793
Target:  5'- gGGCgUGCUCAACGGGuGCGACg---- -3'
miRNA:   3'- -UCGgGCGAGUUGUUCuCGCUGacccu -5'
7691 3' -56.6 NC_001973.1 + 75971 0.67 0.819793
Target:  5'- cGCUCGUUCGuCGAGGGCGAaaacGGGu -3'
miRNA:   3'- uCGGGCGAGUuGUUCUCGCUga--CCCu -5'
7691 3' -56.6 NC_001973.1 + 135110 0.68 0.811124
Target:  5'- uGGUCCGa-CAGuCGGGGGUGACUGGcGAg -3'
miRNA:   3'- -UCGGGCgaGUU-GUUCUCGCUGACC-CU- -5'
7691 3' -56.6 NC_001973.1 + 74484 0.68 0.802292
Target:  5'- cGCCCGCUCGACGcgucGAaCGugUGGu- -3'
miRNA:   3'- uCGGGCGAGUUGUu---CUcGCugACCcu -5'
7691 3' -56.6 NC_001973.1 + 28740 0.68 0.802292
Target:  5'- gAGCCCGCUCAGCAcuccgucgucgaAGAuuuGCGACa---- -3'
miRNA:   3'- -UCGGGCGAGUUGU------------UCU---CGCUGacccu -5'
7691 3' -56.6 NC_001973.1 + 18849 0.68 0.802292
Target:  5'- --gCCGUcaugaaguucaUCGACGAGAGCGGCcucgagUGGGAa -3'
miRNA:   3'- ucgGGCG-----------AGUUGUUCUCGCUG------ACCCU- -5'
7691 3' -56.6 NC_001973.1 + 5690 0.7 0.666575
Target:  5'- cGCCCGCUUucGCgAGGAGUGcCUGaGGAg -3'
miRNA:   3'- uCGGGCGAGu-UG-UUCUCGCuGAC-CCU- -5'
7691 3' -56.6 NC_001973.1 + 135380 0.71 0.625716
Target:  5'- aAGaCCCGCagcuaCAucGCAAGGGCGgcgcGCUGGGAa -3'
miRNA:   3'- -UC-GGGCGa----GU--UGUUCUCGC----UGACCCU- -5'
7691 3' -56.6 NC_001973.1 + 108399 0.71 0.615494
Target:  5'- cGCgCUGCUCAGCGuGuGCuACUGGGAg -3'
miRNA:   3'- uCG-GGCGAGUUGUuCuCGcUGACCCU- -5'
7691 3' -56.6 NC_001973.1 + 122064 0.71 0.605284
Target:  5'- cGGCUCGCcaUCAAaauGGAGC-ACUGGGAg -3'
miRNA:   3'- -UCGGGCG--AGUUgu-UCUCGcUGACCCU- -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.