miRNA display CGI


Results 1 - 20 of 24 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
18555 3' -56.3 NC_004682.1 + 22125 0.66 0.672479
Target:  5'- cGGCGuCA---UCUUCGUcccGCCGCCGCc -3'
miRNA:   3'- cCCGCcGUcuaAGGAGUA---UGGCGGCG- -5'
18555 3' -56.3 NC_004682.1 + 50345 0.66 0.672479
Target:  5'- aGGGCGGCg----CgUCGgugAgCGCCGCc -3'
miRNA:   3'- -CCCGCCGucuaaGgAGUa--UgGCGGCG- -5'
18555 3' -56.3 NC_004682.1 + 50498 0.66 0.672479
Target:  5'- gGGGCGGC----UCCUCGgaggGCCGa-GCc -3'
miRNA:   3'- -CCCGCCGucuaAGGAGUa---UGGCggCG- -5'
18555 3' -56.3 NC_004682.1 + 4914 0.66 0.672479
Target:  5'- cGGGCGGCA----CCaCGUACCacuacGUCGCg -3'
miRNA:   3'- -CCCGCCGUcuaaGGaGUAUGG-----CGGCG- -5'
18555 3' -56.3 NC_004682.1 + 1158 0.66 0.672479
Target:  5'- -uGCuGaGCAGccUCCUCGUcuccgagggugACCGCCGCc -3'
miRNA:   3'- ccCG-C-CGUCuaAGGAGUA-----------UGGCGGCG- -5'
18555 3' -56.3 NC_004682.1 + 24607 0.66 0.661591
Target:  5'- cGGaCGGCaccgAGGUgaccuaCCggaCGUACCGCUGCg -3'
miRNA:   3'- cCC-GCCG----UCUAa-----GGa--GUAUGGCGGCG- -5'
18555 3' -56.3 NC_004682.1 + 15907 0.66 0.650677
Target:  5'- uGGCGGCAcAUUCCaaGUcgaaGCCgaaGCCGCc -3'
miRNA:   3'- cCCGCCGUcUAAGGagUA----UGG---CGGCG- -5'
18555 3' -56.3 NC_004682.1 + 14323 0.66 0.650677
Target:  5'- -cGCGGCGG--UCCUCG-ACCuCCGUg -3'
miRNA:   3'- ccCGCCGUCuaAGGAGUaUGGcGGCG- -5'
18555 3' -56.3 NC_004682.1 + 50095 0.66 0.617872
Target:  5'- cGGGCGuugcccucaGCGGAUgaCUUCuUGCCGUgGCa -3'
miRNA:   3'- -CCCGC---------CGUCUAa-GGAGuAUGGCGgCG- -5'
18555 3' -56.3 NC_004682.1 + 50046 0.66 0.616779
Target:  5'- aGGGUGGCGuucGGUcggucgcuUCCUCcuggcucGUaACUGCCGCu -3'
miRNA:   3'- -CCCGCCGU---CUA--------AGGAG-------UA-UGGCGGCG- -5'
18555 3' -56.3 NC_004682.1 + 4973 0.67 0.596048
Target:  5'- cGGGCGGUcuGGAUcgCCaCAgcgGCUuccaGCCGCa -3'
miRNA:   3'- -CCCGCCG--UCUAa-GGaGUa--UGG----CGGCG- -5'
18555 3' -56.3 NC_004682.1 + 23789 0.67 0.585176
Target:  5'- aGGGCGaGUGGGacaUCCUCGUcuucucgaagAUCGaCCGCa -3'
miRNA:   3'- -CCCGC-CGUCUa--AGGAGUA----------UGGC-GGCG- -5'
18555 3' -56.3 NC_004682.1 + 29036 0.67 0.585176
Target:  5'- cGGGauCGGCAGcgg---CAUGCCGaCCGCa -3'
miRNA:   3'- -CCC--GCCGUCuaaggaGUAUGGC-GGCG- -5'
18555 3' -56.3 NC_004682.1 + 26232 0.68 0.552827
Target:  5'- --cCGGUAGGUcaCCUCgGUGCCGuCCGCg -3'
miRNA:   3'- cccGCCGUCUAa-GGAG-UAUGGC-GGCG- -5'
18555 3' -56.3 NC_004682.1 + 40593 0.68 0.531558
Target:  5'- cGGCGGC-GAUggcCCgagcCAUGCaguGCCGCg -3'
miRNA:   3'- cCCGCCGuCUAa--GGa---GUAUGg--CGGCG- -5'
18555 3' -56.3 NC_004682.1 + 43114 0.68 0.510592
Target:  5'- cGGGCaccggggaucuuGGuCAGGUUgcCCUCgAUugCGCCGUg -3'
miRNA:   3'- -CCCG------------CC-GUCUAA--GGAG-UAugGCGGCG- -5'
18555 3' -56.3 NC_004682.1 + 2966 0.69 0.486921
Target:  5'- cGGGCGGCGGcgcugggcaguggaAcUCCUCAcccuCCGaCGCg -3'
miRNA:   3'- -CCCGCCGUC--------------UaAGGAGUau--GGCgGCG- -5'
18555 3' -56.3 NC_004682.1 + 42207 0.7 0.430665
Target:  5'- cGGCGGCGucaaUCUUCuUGCCGCUGUc -3'
miRNA:   3'- cCCGCCGUcua-AGGAGuAUGGCGGCG- -5'
18555 3' -56.3 NC_004682.1 + 39689 0.7 0.429712
Target:  5'- -uGCGGCAGcgUCaUCcggcccccagcagGUACCGCUGCg -3'
miRNA:   3'- ccCGCCGUCuaAGgAG-------------UAUGGCGGCG- -5'
18555 3' -56.3 NC_004682.1 + 35931 0.7 0.398978
Target:  5'- -uGCGGUAGAacugcuuugcggCCUC--GCCGCCGCa -3'
miRNA:   3'- ccCGCCGUCUaa----------GGAGuaUGGCGGCG- -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.