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
7021 3' -59.5 NC_001875.2 + 127959 0.66 0.706939
Target:  5'- aGGCGGCUcugAAGcGCGUgGAGaUUGcGGCGGa -3'
miRNA:   3'- -UCGCCGA---UUC-CGCA-CUC-GAC-CCGCUc -5'
7021 3' -59.5 NC_001875.2 + 65758 0.66 0.706939
Target:  5'- gAGCGacCUGAGcCGgcGGCUGGGCGAGc -3'
miRNA:   3'- -UCGCc-GAUUCcGCacUCGACCCGCUC- -5'
7021 3' -59.5 NC_001875.2 + 117325 0.66 0.676789
Target:  5'- gAGCGGCUugacacGGCGcGGcGC-GGGCGAa -3'
miRNA:   3'- -UCGCCGAuu----CCGCaCU-CGaCCCGCUc -5'
7021 3' -59.5 NC_001875.2 + 3111 0.67 0.636118
Target:  5'- cGCGGCUcgcGGCGcaGAcCUGGGCGGc -3'
miRNA:   3'- uCGCCGAuu-CCGCa-CUcGACCCGCUc -5'
7021 3' -59.5 NC_001875.2 + 12967 0.67 0.636118
Target:  5'- cGCGGC--GGGCGUGGGCUccGCGc- -3'
miRNA:   3'- uCGCCGauUCCGCACUCGAccCGCuc -5'
7021 3' -59.5 NC_001875.2 + 122813 0.67 0.625922
Target:  5'- cGGCGGCUccaaacgcAAGGCGUccGAGgUGGacaGCGAc -3'
miRNA:   3'- -UCGCCGA--------UUCCGCA--CUCgACC---CGCUc -5'
7021 3' -59.5 NC_001875.2 + 85300 0.68 0.605553
Target:  5'- gGGCGGCgcGGGCGcGGGCauugccgcGGGCGc- -3'
miRNA:   3'- -UCGCCGauUCCGCaCUCGa-------CCCGCuc -5'
7021 3' -59.5 NC_001875.2 + 46500 0.68 0.5641
Target:  5'- -aCGGCgucGGCGUucgcggcGGGCgGGGCGAGa -3'
miRNA:   3'- ucGCCGauuCCGCA-------CUCGaCCCGCUC- -5'
7021 3' -59.5 NC_001875.2 + 50009 0.69 0.535231
Target:  5'- cGCGGUUGGGGCGcgcgUGGucGCcGGGCGGc -3'
miRNA:   3'- uCGCCGAUUCCGC----ACU--CGaCCCGCUc -5'
7021 3' -59.5 NC_001875.2 + 3214 0.69 0.505932
Target:  5'- cGGCGGUUGgauGGCGUGGGCgcguuGGCGu- -3'
miRNA:   3'- -UCGCCGAUu--CCGCACUCGac---CCGCuc -5'
7021 3' -59.5 NC_001875.2 + 64298 0.69 0.500154
Target:  5'- cGCGuGCUGcaAGGCG-GAGCUccgcagauauaucgaGGGCGAa -3'
miRNA:   3'- uCGC-CGAU--UCCGCaCUCGA---------------CCCGCUc -5'
7021 3' -59.5 NC_001875.2 + 73683 0.7 0.477342
Target:  5'- cGGCGGCUGcugcGGCGgcuGCUGcGGCGGc -3'
miRNA:   3'- -UCGCCGAUu---CCGCacuCGAC-CCGCUc -5'
7021 3' -59.5 NC_001875.2 + 74650 0.72 0.363985
Target:  5'- cAGCGuGCcauGGcCG-GGGCUGGGCGAGc -3'
miRNA:   3'- -UCGC-CGauuCC-GCaCUCGACCCGCUC- -5'
7021 3' -59.5 NC_001875.2 + 73632 0.74 0.290355
Target:  5'- cGGCGGCUGcGGCGgcuGCUGcGGCGGc -3'
miRNA:   3'- -UCGCCGAUuCCGCacuCGAC-CCGCUc -5'
7021 3' -59.5 NC_001875.2 + 2825 0.75 0.246106
Target:  5'- cGCGGCgacguuGGCGaGuAGCUGGGCGAa -3'
miRNA:   3'- uCGCCGauu---CCGCaC-UCGACCCGCUc -5'
7021 3' -59.5 NC_001875.2 + 128952 1.07 0.001305
Target:  5'- gAGCGGCUAAGGCGUGAGCUGGGCGAGc -3'
miRNA:   3'- -UCGCCGAUUCCGCACUCGACCCGCUC- -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.