miRNA display CGI


Results 1 - 20 of 22 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
18330 5' -55.2 NC_004681.1 + 56121 0.66 0.766167
Target:  5'- -gUGAAGGCGAUGCg-GAGgUCG-CCCu -3'
miRNA:   3'- uaGCUUUCGCUACGgaCUC-GGCaGGG- -5'
18330 5' -55.2 NC_004681.1 + 30832 0.67 0.756093
Target:  5'- cUCGAuGAGC-AUGCCgucGAGCuCGcCCCa -3'
miRNA:   3'- uAGCU-UUCGcUACGGa--CUCG-GCaGGG- -5'
18330 5' -55.2 NC_004681.1 + 12760 0.67 0.755079
Target:  5'- -gCGAGaucAGCGAUGCCaccucggUGGGUCGcUCCg -3'
miRNA:   3'- uaGCUU---UCGCUACGG-------ACUCGGC-AGGg -5'
18330 5' -55.2 NC_004681.1 + 4565 0.67 0.73559
Target:  5'- cUCGguGGCGAUGCUgaccAGUgGUCCUc -3'
miRNA:   3'- uAGCuuUCGCUACGGac--UCGgCAGGG- -5'
18330 5' -55.2 NC_004681.1 + 19760 0.67 0.714684
Target:  5'- -cCGAccAGCugcauacgGAUGCCgcuGCCGUCCCa -3'
miRNA:   3'- uaGCUu-UCG--------CUACGGacuCGGCAGGG- -5'
18330 5' -55.2 NC_004681.1 + 1864 0.68 0.690256
Target:  5'- --gGAGGGCGAUgGCCUGGGgaacuaccuggguaUCGUCCa -3'
miRNA:   3'- uagCUUUCGCUA-CGGACUC--------------GGCAGGg -5'
18330 5' -55.2 NC_004681.1 + 62620 0.68 0.682759
Target:  5'- uGUCGGAGGCGGcUGCCaGGGUg--CCCa -3'
miRNA:   3'- -UAGCUUUCGCU-ACGGaCUCGgcaGGG- -5'
18330 5' -55.2 NC_004681.1 + 2821 0.68 0.682759
Target:  5'- gGUCGGAGGCGAcgaGUUcGGcGCCGUCCg -3'
miRNA:   3'- -UAGCUUUCGCUa--CGGaCU-CGGCAGGg -5'
18330 5' -55.2 NC_004681.1 + 39280 0.69 0.639584
Target:  5'- cGUCGAGGGCGAgcaucuccgcgGCCcgGAuGCCgGUCUCg -3'
miRNA:   3'- -UAGCUUUCGCUa----------CGGa-CU-CGG-CAGGG- -5'
18330 5' -55.2 NC_004681.1 + 51560 0.69 0.628749
Target:  5'- uUCGAugAGGCGAcgcUGCCUG-GCUuuGUCCUu -3'
miRNA:   3'- uAGCU--UUCGCU---ACGGACuCGG--CAGGG- -5'
18330 5' -55.2 NC_004681.1 + 50214 0.69 0.626583
Target:  5'- -gCGAGGGCGAUGagcuccucgaggCUGAuguaGCCGUCCUu -3'
miRNA:   3'- uaGCUUUCGCUACg-----------GACU----CGGCAGGG- -5'
18330 5' -55.2 NC_004681.1 + 18199 0.69 0.617918
Target:  5'- -cCGggGGCgccGAUGCCgggGAuGCCGaugCCCa -3'
miRNA:   3'- uaGCuuUCG---CUACGGa--CU-CGGCa--GGG- -5'
18330 5' -55.2 NC_004681.1 + 26367 0.69 0.596299
Target:  5'- cUCGguGGUGAUGCCgccgagGAGuCCGUcaugcCCCa -3'
miRNA:   3'- uAGCuuUCGCUACGGa-----CUC-GGCA-----GGG- -5'
18330 5' -55.2 NC_004681.1 + 18128 0.7 0.564112
Target:  5'- -cCGuGAGGCGuUGCCcGAGCCGUacuggCCCg -3'
miRNA:   3'- uaGC-UUUCGCuACGGaCUCGGCA-----GGG- -5'
18330 5' -55.2 NC_004681.1 + 33123 0.7 0.564112
Target:  5'- -aCGggGGCGAUGCCa----UGUCCCg -3'
miRNA:   3'- uaGCuuUCGCUACGGacucgGCAGGG- -5'
18330 5' -55.2 NC_004681.1 + 30248 0.7 0.542907
Target:  5'- -gCGGccGCGccGCCUGAGCcCGaCCCa -3'
miRNA:   3'- uaGCUuuCGCuaCGGACUCG-GCaGGG- -5'
18330 5' -55.2 NC_004681.1 + 7488 0.7 0.529265
Target:  5'- uUCGGAcgcuccGGuCGAUGCCUGGGCCugggugcgcgcgacGUUCCu -3'
miRNA:   3'- uAGCUU------UC-GCUACGGACUCGG--------------CAGGG- -5'
18330 5' -55.2 NC_004681.1 + 41158 0.72 0.461262
Target:  5'- cAUCGgcGGCGgcGCCgaagaGGGCCGUCgCa -3'
miRNA:   3'- -UAGCuuUCGCuaCGGa----CUCGGCAGgG- -5'
18330 5' -55.2 NC_004681.1 + 48740 0.72 0.4409
Target:  5'- -gUGGAGGCGGUGUCauUGccgauguagugguAGCCGUCCCc -3'
miRNA:   3'- uaGCUUUCGCUACGG--AC-------------UCGGCAGGG- -5'
18330 5' -55.2 NC_004681.1 + 29643 0.74 0.328094
Target:  5'- cUUGgcGGCGAUGCCcGAGCCGgaagCCg -3'
miRNA:   3'- uAGCuuUCGCUACGGaCUCGGCa---GGg -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.