miRNA display CGI


Results 1 - 20 of 21 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
28739 3' -53.5 NC_006146.1 + 117533 0.66 0.973417
Target:  5'- cGCCUCUCccucgGGGCCUGGgccgcauucaggcugUUCAGGGUa- -3'
miRNA:   3'- uUGGAGAG-----UCUGGACU---------------GAGUUCCAgc -5'
28739 3' -53.5 NC_006146.1 + 55669 0.66 0.972309
Target:  5'- gGGCCUCUCAG-CUgGGCUCccuGGGUg- -3'
miRNA:   3'- -UUGGAGAGUCuGGaCUGAGu--UCCAgc -5'
28739 3' -53.5 NC_006146.1 + 20844 0.66 0.972309
Target:  5'- uGCCUCUCcaucgccgAGACCgUGACgcugCAGGGgCGc -3'
miRNA:   3'- uUGGAGAG--------UCUGG-ACUGa---GUUCCaGC- -5'
28739 3' -53.5 NC_006146.1 + 130479 0.66 0.969392
Target:  5'- gAGCCUCUCuu-CCgGGCUCAccaugauuaacuAGGUCu -3'
miRNA:   3'- -UUGGAGAGucuGGaCUGAGU------------UCCAGc -5'
28739 3' -53.5 NC_006146.1 + 59840 0.67 0.951502
Target:  5'- gGugCggCUCAGGCUcccgUGACUCAGGGagGa -3'
miRNA:   3'- -UugGa-GAGUCUGG----ACUGAGUUCCagC- -5'
28739 3' -53.5 NC_006146.1 + 116638 0.67 0.942709
Target:  5'- -cCCUCUCGGaggacguuucccGCCUGAC-CGGGGcCGc -3'
miRNA:   3'- uuGGAGAGUC------------UGGACUGaGUUCCaGC- -5'
28739 3' -53.5 NC_006146.1 + 165727 0.67 0.936966
Target:  5'- aAACgUCUCGGGCCUGGCcaggaacuucagCAGGG-CGu -3'
miRNA:   3'- -UUGgAGAGUCUGGACUGa-----------GUUCCaGC- -5'
28739 3' -53.5 NC_006146.1 + 167097 0.68 0.93294
Target:  5'- uGGCCUgaCcCAGACCUGACUguGGGcCa -3'
miRNA:   3'- -UUGGA--GaGUCUGGACUGAguUCCaGc -5'
28739 3' -53.5 NC_006146.1 + 60415 0.68 0.922183
Target:  5'- -cCCUCcUGGACCUGGC-CGGGGUgGa -3'
miRNA:   3'- uuGGAGaGUCUGGACUGaGUUCCAgC- -5'
28739 3' -53.5 NC_006146.1 + 45050 0.68 0.904195
Target:  5'- gGGCCUCgCGGGCCUugGGCUUGAugaccGGUCGg -3'
miRNA:   3'- -UUGGAGaGUCUGGA--CUGAGUU-----CCAGC- -5'
28739 3' -53.5 NC_006146.1 + 142051 0.69 0.890989
Target:  5'- uGGCCUCUgGGGCCacccgGGCUgcCGGGGUCc -3'
miRNA:   3'- -UUGGAGAgUCUGGa----CUGA--GUUCCAGc -5'
28739 3' -53.5 NC_006146.1 + 145129 0.69 0.890989
Target:  5'- uGGCCUCUgGGGCCacccgGGCUgcCGGGGUCc -3'
miRNA:   3'- -UUGGAGAgUCUGGa----CUGA--GUUCCAGc -5'
28739 3' -53.5 NC_006146.1 + 148207 0.69 0.890989
Target:  5'- uGGCCUCUgGGGCCacccgGGCUgcCGGGGUCc -3'
miRNA:   3'- -UUGGAGAgUCUGGa----CUGA--GUUCCAGc -5'
28739 3' -53.5 NC_006146.1 + 151285 0.69 0.890989
Target:  5'- uGGCCUCUgGGGCCacccgGGCUgcCGGGGUCc -3'
miRNA:   3'- -UUGGAGAgUCUGGa----CUGA--GUUCCAGc -5'
28739 3' -53.5 NC_006146.1 + 154363 0.69 0.890989
Target:  5'- uGGCCUCUgGGGCCacccgGGCUgcCGGGGUCc -3'
miRNA:   3'- -UUGGAGAgUCUGGa----CUGA--GUUCCAGc -5'
28739 3' -53.5 NC_006146.1 + 117486 0.69 0.890989
Target:  5'- -uCCUCUCGG-CCgagaGACUCGcGGUCa -3'
miRNA:   3'- uuGGAGAGUCuGGa---CUGAGUuCCAGc -5'
28739 3' -53.5 NC_006146.1 + 157441 0.69 0.890989
Target:  5'- uGGCCUCUgGGGCCacccgGGCUgcCGGGGUCc -3'
miRNA:   3'- -UUGGAGAgUCUGGa----CUGA--GUUCCAGc -5'
28739 3' -53.5 NC_006146.1 + 157495 0.69 0.869425
Target:  5'- gGGCCUUgCAGACCUGGCUgAGGcaGUCc -3'
miRNA:   3'- -UUGGAGaGUCUGGACUGAgUUC--CAGc -5'
28739 3' -53.5 NC_006146.1 + 146846 0.7 0.853937
Target:  5'- gAGCC---CGGGCCUGGCUCGGGGcCGc -3'
miRNA:   3'- -UUGGagaGUCUGGACUGAGUUCCaGC- -5'
28739 3' -53.5 NC_006146.1 + 9567 0.71 0.774842
Target:  5'- aGACCUCUU-GGCCUGAacagaCAGGGUCa -3'
miRNA:   3'- -UUGGAGAGuCUGGACUga---GUUCCAGc -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.