miRNA display CGI


Results 1 - 20 of 22 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
22093 3' -51.1 NC_004927.1 + 24702 0.67 0.924223
Target:  5'- gGCGuuccguacuucGAGGGCGACcucccggCGUccuGCCGCCGa -3'
miRNA:   3'- -CGC-----------UUCUUGCUGuua----GCAu--CGGCGGC- -5'
22093 3' -51.1 NC_004927.1 + 59129 0.66 0.967087
Target:  5'- uGCGAAGAcccucgauggguuagGCGACAAUC-UGGuuGaCGa -3'
miRNA:   3'- -CGCUUCU---------------UGCUGUUAGcAUCggCgGC- -5'
22093 3' -51.1 NC_004927.1 + 40179 0.66 0.962161
Target:  5'- gGCGAcGAGCGAgacuaccuccgaCGAgccgCGUucgAGCCGCUGu -3'
miRNA:   3'- -CGCUuCUUGCU------------GUUa---GCA---UCGGCGGC- -5'
22093 3' -51.1 NC_004927.1 + 14596 0.66 0.961791
Target:  5'- aGCGGucuGGAgcguuccACGGCGcUCGUGGgUCGCCa -3'
miRNA:   3'- -CGCU---UCU-------UGCUGUuAGCAUC-GGCGGc -5'
22093 3' -51.1 NC_004927.1 + 14514 0.66 0.957947
Target:  5'- cGgGAAGugGACGACGGccCGUAGCUcaggauaGCCGa -3'
miRNA:   3'- -CgCUUC--UUGCUGUUa-GCAUCGG-------CGGC- -5'
22093 3' -51.1 NC_004927.1 + 10911 0.66 0.95427
Target:  5'- uCGggGAGgGAgcaguccuuaCAGUUGUcGCCGCUGg -3'
miRNA:   3'- cGCuuCUUgCU----------GUUAGCAuCGGCGGC- -5'
22093 3' -51.1 NC_004927.1 + 3012 0.66 0.949935
Target:  5'- cCGggGAGuCGAacccCGgAGCCGCCGc -3'
miRNA:   3'- cGCuuCUU-GCUguuaGCaUCGGCGGC- -5'
22093 3' -51.1 NC_004927.1 + 20469 0.66 0.949935
Target:  5'- cCGAAGGguuCGAgAGUCGcuucgaGGUCGCCGg -3'
miRNA:   3'- cGCUUCUu--GCUgUUAGCa-----UCGGCGGC- -5'
22093 3' -51.1 NC_004927.1 + 71964 0.67 0.940465
Target:  5'- -aGAGGAcGCGAUGGggcgCGgAGCCGCUGa -3'
miRNA:   3'- cgCUUCU-UGCUGUUa---GCaUCGGCGGC- -5'
22093 3' -51.1 NC_004927.1 + 47173 0.67 0.940465
Target:  5'- gGUGAagcAGGGCGGCAagcGUCGUGG-CGCUc -3'
miRNA:   3'- -CGCU---UCUUGCUGU---UAGCAUCgGCGGc -5'
22093 3' -51.1 NC_004927.1 + 71101 0.67 0.935325
Target:  5'- gGCGAgcGGAugGACu-UC---GCCGCCGa -3'
miRNA:   3'- -CGCU--UCUugCUGuuAGcauCGGCGGC- -5'
22093 3' -51.1 NC_004927.1 + 69524 1.11 0.003351
Target:  5'- uGCGAAGAACGACAAUCGUAGCCGCCGu -3'
miRNA:   3'- -CGCUUCUUGCUGUUAGCAUCGGCGGC- -5'
22093 3' -51.1 NC_004927.1 + 2324 0.67 0.924223
Target:  5'- gGCGAggaAGAACGcucuccCAAUUG-AGCCGUCGc -3'
miRNA:   3'- -CGCU---UCUUGCu-----GUUAGCaUCGGCGGC- -5'
22093 3' -51.1 NC_004927.1 + 63913 0.68 0.916419
Target:  5'- gGUGAGGugauUGACAcccacuacgcucgcGUCaGUAGCCGCCc -3'
miRNA:   3'- -CGCUUCuu--GCUGU--------------UAG-CAUCGGCGGc -5'
22093 3' -51.1 NC_004927.1 + 37834 0.68 0.905519
Target:  5'- uCGGAGGGCuggucggcuuucGACAcaucgaGUCGU-GCCGCCGu -3'
miRNA:   3'- cGCUUCUUG------------CUGU------UAGCAuCGGCGGC- -5'
22093 3' -51.1 NC_004927.1 + 73358 0.68 0.904853
Target:  5'- uGCGAA-AACuGCGAUUGUGGCCuuucugaGCCGg -3'
miRNA:   3'- -CGCUUcUUGcUGUUAGCAUCGG-------CGGC- -5'
22093 3' -51.1 NC_004927.1 + 50245 0.68 0.898743
Target:  5'- cUGGAGGugGCGGCGGUgGUGGUggaGCCGg -3'
miRNA:   3'- cGCUUCU--UGCUGUUAgCAUCGg--CGGC- -5'
22093 3' -51.1 NC_004927.1 + 26629 0.69 0.884399
Target:  5'- cGCGucguGAGCGACGggaaugaacucGUCGUAGuaGCCc -3'
miRNA:   3'- -CGCuu--CUUGCUGU-----------UAGCAUCggCGGc -5'
22093 3' -51.1 NC_004927.1 + 14645 0.69 0.852686
Target:  5'- uCGAGGAugGgAUAGUCGgGGUCGCaCGg -3'
miRNA:   3'- cGCUUCUugC-UGUUAGCaUCGGCG-GC- -5'
22093 3' -51.1 NC_004927.1 + 49201 0.72 0.716905
Target:  5'- cGCGAGGAugGACAAaaa-GGCCGCg- -3'
miRNA:   3'- -CGCUUCUugCUGUUagcaUCGGCGgc -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.