miRNA display CGI


Results 1 - 19 of 19 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
28374 5' -54.3 NC_005946.1 + 16204 0.66 0.906485
Target:  5'- aCCGUCCgccaugGAGGccgccgagGCAgccauGGACGCCAa -3'
miRNA:   3'- cGGCAGGa-----CUCCua------CGU-----UCUGUGGUc -5'
28374 5' -54.3 NC_005946.1 + 31203 0.66 0.906485
Target:  5'- cGCaGUCuUUGAGGAUGCcauaAAGACGCUc- -3'
miRNA:   3'- -CGgCAG-GACUCCUACG----UUCUGUGGuc -5'
28374 5' -54.3 NC_005946.1 + 13828 0.66 0.899966
Target:  5'- uGCCGgg--GAGG-UGCuugGAGGCACCGGc -3'
miRNA:   3'- -CGGCaggaCUCCuACG---UUCUGUGGUC- -5'
28374 5' -54.3 NC_005946.1 + 49196 0.66 0.886181
Target:  5'- uCCGUUCUcAGGAUGgGAGcaGCCAGg -3'
miRNA:   3'- cGGCAGGAcUCCUACgUUCugUGGUC- -5'
28374 5' -54.3 NC_005946.1 + 61393 0.67 0.878923
Target:  5'- -aCGUCaaGAGGAUGgcCGAGACACUg- -3'
miRNA:   3'- cgGCAGgaCUCCUAC--GUUCUGUGGuc -5'
28374 5' -54.3 NC_005946.1 + 23051 0.67 0.878923
Target:  5'- --gGUCCcgGAGGuccGCGAGACcCCAGa -3'
miRNA:   3'- cggCAGGa-CUCCua-CGUUCUGuGGUC- -5'
28374 5' -54.3 NC_005946.1 + 13744 0.67 0.863706
Target:  5'- cGCCucggCCUG-GGAc-CAGGACGCCGGg -3'
miRNA:   3'- -CGGca--GGACuCCUacGUUCUGUGGUC- -5'
28374 5' -54.3 NC_005946.1 + 86654 0.67 0.855757
Target:  5'- uGCUgGUCCUGAGGAcccUGCAguccgAGAUuauccccuCCAGg -3'
miRNA:   3'- -CGG-CAGGACUCCU---ACGU-----UCUGu-------GGUC- -5'
28374 5' -54.3 NC_005946.1 + 93898 0.67 0.839214
Target:  5'- aCCGUCCUGGGuGAUGaacccGugGCCGc -3'
miRNA:   3'- cGGCAGGACUC-CUACguu--CugUGGUc -5'
28374 5' -54.3 NC_005946.1 + 79006 0.68 0.821861
Target:  5'- aGCCGgcggCCacgGAGGcgGCGu-ACGCCAGg -3'
miRNA:   3'- -CGGCa---GGa--CUCCuaCGUucUGUGGUC- -5'
28374 5' -54.3 NC_005946.1 + 95814 0.68 0.803767
Target:  5'- uGCC-UCCUGcaagacucacagGGGAUGC-AGAC-CCAGa -3'
miRNA:   3'- -CGGcAGGAC------------UCCUACGuUCUGuGGUC- -5'
28374 5' -54.3 NC_005946.1 + 56761 0.69 0.781178
Target:  5'- cGCCGUCCguagacaGCAAGACuGCCAGg -3'
miRNA:   3'- -CGGCAGGacuccuaCGUUCUG-UGGUC- -5'
28374 5' -54.3 NC_005946.1 + 20866 0.69 0.774427
Target:  5'- cGCCGcgguggcCCUGAGGGcaaaggcUGCGgcAGACGCCGu -3'
miRNA:   3'- -CGGCa------GGACUCCU-------ACGU--UCUGUGGUc -5'
28374 5' -54.3 NC_005946.1 + 28883 0.69 0.755776
Target:  5'- aCCGUCCcgUGGGGAgaguuUGC-AGACGuCCAGu -3'
miRNA:   3'- cGGCAGG--ACUCCU-----ACGuUCUGU-GGUC- -5'
28374 5' -54.3 NC_005946.1 + 10957 0.69 0.754782
Target:  5'- uCCGUCCcugccccUGAGGAgccUGUAGGACucuacACCGGg -3'
miRNA:   3'- cGGCAGG-------ACUCCU---ACGUUCUG-----UGGUC- -5'
28374 5' -54.3 NC_005946.1 + 2887 0.71 0.673425
Target:  5'- cGCCGaCCUGuccucGCAGGACGCCGGc -3'
miRNA:   3'- -CGGCaGGACuccuaCGUUCUGUGGUC- -5'
28374 5' -54.3 NC_005946.1 + 83125 0.73 0.536551
Target:  5'- aGCCGUCCUGAGGGaGCcc-ACucCCAGg -3'
miRNA:   3'- -CGGCAGGACUCCUaCGuucUGu-GGUC- -5'
28374 5' -54.3 NC_005946.1 + 95115 0.76 0.384108
Target:  5'- gGCgGUCCUGAGGAUcGCucc-CACCAGg -3'
miRNA:   3'- -CGgCAGGACUCCUA-CGuucuGUGGUC- -5'
28374 5' -54.3 NC_005946.1 + 35897 1.11 0.001847
Target:  5'- gGCCGUCCUGAGGAUGCAAGACACCAGg -3'
miRNA:   3'- -CGGCAGGACUCCUACGUUCUGUGGUC- -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.