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
26727 3' -51.5 NC_005808.1 + 91 0.69 0.663033
Target:  5'- aGCGAGCCAUuuCCAGaUCGUucugcgcgCCGUCc -3'
miRNA:   3'- cCGCUCGGUAcuGGUUaAGCA--------GGUAG- -5'
26727 3' -51.5 NC_005808.1 + 323 0.66 0.814737
Target:  5'- gGGCGuGCCGU-ACCGGgggUCGUgCCAc- -3'
miRNA:   3'- -CCGCuCGGUAcUGGUUa--AGCA-GGUag -5'
26727 3' -51.5 NC_005808.1 + 922 0.66 0.860768
Target:  5'- cGGCauuGAGUguCAgggGGCCGAUcUGUCCGUCc -3'
miRNA:   3'- -CCG---CUCG--GUa--CUGGUUAaGCAGGUAG- -5'
26727 3' -51.5 NC_005808.1 + 1693 1.14 0.000838
Target:  5'- cGGCGAGCCAUGACCAAUUCGUCCAUCg -3'
miRNA:   3'- -CCGCUCGGUACUGGUUAAGCAGGUAG- -5'
26727 3' -51.5 NC_005808.1 + 3014 0.66 0.824407
Target:  5'- cGGCGGGUCAUaGCUgc-UCGUCCuUCc -3'
miRNA:   3'- -CCGCUCGGUAcUGGuuaAGCAGGuAG- -5'
26727 3' -51.5 NC_005808.1 + 3799 0.68 0.741856
Target:  5'- cGGuCGGGCagCAUGACCAGgcggUCGggggcgCCGUUg -3'
miRNA:   3'- -CC-GCUCG--GUACUGGUUa---AGCa-----GGUAG- -5'
26727 3' -51.5 NC_005808.1 + 3838 0.7 0.641191
Target:  5'- uGGUGAGUCAUGACCucggCGaaguuguaccaggcgCCGUCg -3'
miRNA:   3'- -CCGCUCGGUACUGGuuaaGCa--------------GGUAG- -5'
26727 3' -51.5 NC_005808.1 + 4880 0.7 0.64004
Target:  5'- cGGCGAGCCAcGcaAUCAug-CGUCCuUCg -3'
miRNA:   3'- -CCGCUCGGUaC--UGGUuaaGCAGGuAG- -5'
26727 3' -51.5 NC_005808.1 + 8613 0.67 0.763481
Target:  5'- uGGCGuAGgCGUGGCCGGUaCGcCCuUCg -3'
miRNA:   3'- -CCGC-UCgGUACUGGUUAaGCaGGuAG- -5'
26727 3' -51.5 NC_005808.1 + 10084 0.66 0.833856
Target:  5'- gGGCGAGCCGUG-CCA-----UCC-UCg -3'
miRNA:   3'- -CCGCUCGGUACuGGUuaagcAGGuAG- -5'
26727 3' -51.5 NC_005808.1 + 10635 0.7 0.594047
Target:  5'- cGCGuuCCGUGACCAGUUCGUaggcuUCg -3'
miRNA:   3'- cCGCucGGUACUGGUUAAGCAggu--AG- -5'
26727 3' -51.5 NC_005808.1 + 11423 0.69 0.674489
Target:  5'- cGGCGAGCCGgcGugCAggUCG-CCGa- -3'
miRNA:   3'- -CCGCUCGGUa-CugGUuaAGCaGGUag -5'
26727 3' -51.5 NC_005808.1 + 16321 0.74 0.391879
Target:  5'- aGCGAGUacgaCAUGGCCGAUUCGgugCCAc- -3'
miRNA:   3'- cCGCUCG----GUACUGGUUAAGCa--GGUag -5'
26727 3' -51.5 NC_005808.1 + 18027 0.67 0.804857
Target:  5'- cGGCccGaCCGUGGCCGGccUCG-CCAUCg -3'
miRNA:   3'- -CCGcuC-GGUACUGGUUa-AGCaGGUAG- -5'
26727 3' -51.5 NC_005808.1 + 18465 0.74 0.401421
Target:  5'- cGCGGcGCCGgcggcgucGGCCGAUUCGUCCAc- -3'
miRNA:   3'- cCGCU-CGGUa-------CUGGUUAAGCAGGUag -5'
26727 3' -51.5 NC_005808.1 + 24570 0.66 0.824407
Target:  5'- uGGCGAgGCC--GGCCAcggUCGggCCGUCc -3'
miRNA:   3'- -CCGCU-CGGuaCUGGUua-AGCa-GGUAG- -5'
26727 3' -51.5 NC_005808.1 + 24681 0.69 0.663033
Target:  5'- cGCGGGCCAcGuccacgcCCAGgcUGUCCAUCg -3'
miRNA:   3'- cCGCUCGGUaCu------GGUUaaGCAGGUAG- -5'
26727 3' -51.5 NC_005808.1 + 28077 0.68 0.741856
Target:  5'- aGCGGGCagGUGGCCGcggcgUCGuauUCCGUCg -3'
miRNA:   3'- cCGCUCGg-UACUGGUua---AGC---AGGUAG- -5'
26727 3' -51.5 NC_005808.1 + 30640 0.66 0.814737
Target:  5'- cGGCGcgaaugagGGCgCA-GACCAAUUCGUCgGg- -3'
miRNA:   3'- -CCGC--------UCG-GUaCUGGUUAAGCAGgUag -5'
26727 3' -51.5 NC_005808.1 + 30709 0.68 0.708542
Target:  5'- uGGCGGG-CAUGGCU--UUC-UCCAUCg -3'
miRNA:   3'- -CCGCUCgGUACUGGuuAAGcAGGUAG- -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.