miRNA display CGI


Results 1 - 16 of 16 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
16279 3' -56.3 NC_004084.1 + 8327 0.66 0.713399
Target:  5'- cGCGCUCGgaugaacccgGCgcucaUCGUC-UCCGAgGACCAg -3'
miRNA:   3'- -CGUGAGCa---------CG-----AGCAGuGGGCU-CUGGU- -5'
16279 3' -56.3 NC_004084.1 + 22170 0.66 0.692181
Target:  5'- cGCACUCGaGgaCGUCgACCCGguAGGCgAg -3'
miRNA:   3'- -CGUGAGCaCgaGCAG-UGGGC--UCUGgU- -5'
16279 3' -56.3 NC_004084.1 + 49749 0.66 0.692181
Target:  5'- gGUGCUCGaGUggGUCGCCC-AGACCc -3'
miRNA:   3'- -CGUGAGCaCGagCAGUGGGcUCUGGu -5'
16279 3' -56.3 NC_004084.1 + 2793 0.66 0.67074
Target:  5'- gGCACUCGaGCgUGUaccagACgCCGAGGCCGa -3'
miRNA:   3'- -CGUGAGCaCGaGCAg----UG-GGCUCUGGU- -5'
16279 3' -56.3 NC_004084.1 + 15014 0.66 0.659962
Target:  5'- uGCGCUgCG-GCUCGUCGagcgUCGAcGGCCAc -3'
miRNA:   3'- -CGUGA-GCaCGAGCAGUg---GGCU-CUGGU- -5'
16279 3' -56.3 NC_004084.1 + 5130 0.66 0.659962
Target:  5'- cGUACUCGcgGCUggucgccaggaCGUCGCCCG-GcCCGa -3'
miRNA:   3'- -CGUGAGCa-CGA-----------GCAGUGGGCuCuGGU- -5'
16279 3' -56.3 NC_004084.1 + 9313 0.67 0.649158
Target:  5'- aCACUCGaGCcggagacaGUCACgCGAGACCu -3'
miRNA:   3'- cGUGAGCaCGag------CAGUGgGCUCUGGu -5'
16279 3' -56.3 NC_004084.1 + 9539 0.67 0.605889
Target:  5'- cGCcgUCGUGCaUCGUCGcgagcCCCGGGACg- -3'
miRNA:   3'- -CGugAGCACG-AGCAGU-----GGGCUCUGgu -5'
16279 3' -56.3 NC_004084.1 + 13980 0.68 0.581129
Target:  5'- uGCACUgaacgcggcCGUGCUCGUccguucggaacgggUugCCGAG-CCAg -3'
miRNA:   3'- -CGUGA---------GCACGAGCA--------------GugGGCUCuGGU- -5'
16279 3' -56.3 NC_004084.1 + 29354 0.68 0.541791
Target:  5'- -aACUCGcGCUgGUCgacGCCCGGGAUCc -3'
miRNA:   3'- cgUGAGCaCGAgCAG---UGGGCUCUGGu -5'
16279 3' -56.3 NC_004084.1 + 30695 0.69 0.490161
Target:  5'- aGCGuCUCGccugGCUCcUCACCCGGGAaCAg -3'
miRNA:   3'- -CGU-GAGCa---CGAGcAGUGGGCUCUgGU- -5'
16279 3' -56.3 NC_004084.1 + 39427 0.69 0.480104
Target:  5'- uCACUCGaUGCuUCGUUgaUCGAGACCAg -3'
miRNA:   3'- cGUGAGC-ACG-AGCAGugGGCUCUGGU- -5'
16279 3' -56.3 NC_004084.1 + 1564 0.69 0.480104
Target:  5'- aCACUacaaGUGCUC-UgGCCCGAGGCUc -3'
miRNA:   3'- cGUGAg---CACGAGcAgUGGGCUCUGGu -5'
16279 3' -56.3 NC_004084.1 + 41768 0.7 0.450563
Target:  5'- aGCACUCcagcgGCUgCGUCACCCGccccgaaaAGAUCGg -3'
miRNA:   3'- -CGUGAGca---CGA-GCAGUGGGC--------UCUGGU- -5'
16279 3' -56.3 NC_004084.1 + 26082 0.72 0.343419
Target:  5'- -uGCUCGUGCUCuUCGCCUgcgcuGGGAUCAg -3'
miRNA:   3'- cgUGAGCACGAGcAGUGGG-----CUCUGGU- -5'
16279 3' -56.3 NC_004084.1 + 44574 1.1 0.000798
Target:  5'- gGCACUCGUGCUCGUCACCCGAGACCAu -3'
miRNA:   3'- -CGUGAGCACGAGCAGUGGGCUCUGGU- -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.