miRNA display CGI


Results 1 - 17 of 17 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
13427 5' -56.6 NC_003409.1 + 109665 0.66 0.876032
Target:  5'- aGCGUGAGGUacGGCACagCCUUgaGCa -3'
miRNA:   3'- cCGUACUCCGa-CCGUGa-GGAGgaUGc -5'
13427 5' -56.6 NC_003409.1 + 46879 0.66 0.86417
Target:  5'- aGCAuaacucUGuGGCUGGCGgCgagcgugggauaggCCUCCUGCa -3'
miRNA:   3'- cCGU------ACuCCGACCGU-Ga-------------GGAGGAUGc -5'
13427 5' -56.6 NC_003409.1 + 107524 0.66 0.861119
Target:  5'- cGGgAgGGGGCUGGCGCUguaUUCCaucgGCGu -3'
miRNA:   3'- -CCgUaCUCCGACCGUGAg--GAGGa---UGC- -5'
13427 5' -56.6 NC_003409.1 + 66639 0.66 0.860351
Target:  5'- uGGUggGAGGCUGGCggugagguagaagGCaucugugucccCCUCCUGCc -3'
miRNA:   3'- -CCGuaCUCCGACCG-------------UGa----------GGAGGAUGc -5'
13427 5' -56.6 NC_003409.1 + 24425 0.66 0.84537
Target:  5'- gGGCuccUGGGGUgcugccGGgGCUCCUCgUUACGg -3'
miRNA:   3'- -CCGu--ACUCCGa-----CCgUGAGGAG-GAUGC- -5'
13427 5' -56.6 NC_003409.1 + 109149 0.67 0.828839
Target:  5'- gGGCGUgGAGGCUGcCGCuuguuUCCUCCa--- -3'
miRNA:   3'- -CCGUA-CUCCGACcGUG-----AGGAGGaugc -5'
13427 5' -56.6 NC_003409.1 + 42182 0.67 0.820299
Target:  5'- uGGCcacGUGGGGgUGGCACggagagcuggUCUCgCUGCGc -3'
miRNA:   3'- -CCG---UACUCCgACCGUGa---------GGAG-GAUGC- -5'
13427 5' -56.6 NC_003409.1 + 51810 0.67 0.820299
Target:  5'- uGCA-GAGGCUGGCGCg--UgCUACGc -3'
miRNA:   3'- cCGUaCUCCGACCGUGaggAgGAUGC- -5'
13427 5' -56.6 NC_003409.1 + 66930 0.68 0.746472
Target:  5'- cGC-UGAGGC--GCugUCCUCCUggACGg -3'
miRNA:   3'- cCGuACUCCGacCGugAGGAGGA--UGC- -5'
13427 5' -56.6 NC_003409.1 + 131205 0.68 0.746472
Target:  5'- cGGcCAUGAGcGCguacggGGCACUgCUCCcagGCa -3'
miRNA:   3'- -CC-GUACUC-CGa-----CCGUGAgGAGGa--UGc -5'
13427 5' -56.6 NC_003409.1 + 32295 0.69 0.726818
Target:  5'- uGGCAUccAGGCUGGCggACaCCUCCcACGu -3'
miRNA:   3'- -CCGUAc-UCCGACCG--UGaGGAGGaUGC- -5'
13427 5' -56.6 NC_003409.1 + 114403 0.69 0.706833
Target:  5'- cGGgGUGGGGCUGGCAaggCCcCCaaaGCGc -3'
miRNA:   3'- -CCgUACUCCGACCGUga-GGaGGa--UGC- -5'
13427 5' -56.6 NC_003409.1 + 94850 0.7 0.645634
Target:  5'- gGGCAUGAuGaauaUGGCcCUCCUCCUuuGCa -3'
miRNA:   3'- -CCGUACUcCg---ACCGuGAGGAGGA--UGc -5'
13427 5' -56.6 NC_003409.1 + 113019 0.72 0.54355
Target:  5'- uGGCAgGAGGCuucUGGCAuacaauguucuCUCCcCCUGCGu -3'
miRNA:   3'- -CCGUaCUCCG---ACCGU-----------GAGGaGGAUGC- -5'
13427 5' -56.6 NC_003409.1 + 75107 0.72 0.533567
Target:  5'- uGGCcgGGGGCUGGCAa----CCUACGu -3'
miRNA:   3'- -CCGuaCUCCGACCGUgaggaGGAUGC- -5'
13427 5' -56.6 NC_003409.1 + 115592 0.72 0.513805
Target:  5'- uGGgGUGGGGCcggUGGC-CUCCUCCUu-- -3'
miRNA:   3'- -CCgUACUCCG---ACCGuGAGGAGGAugc -5'
13427 5' -56.6 NC_003409.1 + 104075 0.96 0.017316
Target:  5'- gGGCAUGAGGCUGGaC-CUCCUCCUACGa -3'
miRNA:   3'- -CCGUACUCCGACC-GuGAGGAGGAUGC- -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.