miRNA display CGI


Results 1 - 20 of 88 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
19031 3' -63.2 NC_004684.1 + 50040 0.65 0.397599
Target:  5'- gGCCGGUgccUGGCucCAGGCCaggaaccggucgAGCUGCGc -3'
miRNA:   3'- -UGGCCA---GCCGcaGUCCGGg-----------UCGACGC- -5'
19031 3' -63.2 NC_004684.1 + 19458 0.66 0.390782
Target:  5'- cCCGGgCGGCGgu-GGCCCGcGCgacaUGCGc -3'
miRNA:   3'- uGGCCaGCCGCaguCCGGGU-CG----ACGC- -5'
19031 3' -63.2 NC_004684.1 + 24494 0.66 0.390782
Target:  5'- cGCCGGgggCGGUGccgCAGGgCCGcGCguucgGCGg -3'
miRNA:   3'- -UGGCCa--GCCGCa--GUCCgGGU-CGa----CGC- -5'
19031 3' -63.2 NC_004684.1 + 59631 0.66 0.382369
Target:  5'- -aCGGUgGGgGUC-GGCCCGGUcaggucccccaUGCGc -3'
miRNA:   3'- ugGCCAgCCgCAGuCCGGGUCG-----------ACGC- -5'
19031 3' -63.2 NC_004684.1 + 28056 0.66 0.382369
Target:  5'- uGCCGGUggucggcccCGGCgGUguGGCCgGGCcGCc -3'
miRNA:   3'- -UGGCCA---------GCCG-CAguCCGGgUCGaCGc -5'
19031 3' -63.2 NC_004684.1 + 60973 0.66 0.382369
Target:  5'- gGCUGGU-GGCGUC-GGCCuCGGUgGUGa -3'
miRNA:   3'- -UGGCCAgCCGCAGuCCGG-GUCGaCGC- -5'
19031 3' -63.2 NC_004684.1 + 26044 0.66 0.382369
Target:  5'- aACCGGgUGGCcuu-GGCCCGGCcgucgGCGg -3'
miRNA:   3'- -UGGCCaGCCGcaguCCGGGUCGa----CGC- -5'
19031 3' -63.2 NC_004684.1 + 45228 0.66 0.374076
Target:  5'- -gCGGcgcUUGGUgcugGUCAGGCCCGGCaGCc -3'
miRNA:   3'- ugGCC---AGCCG----CAGUCCGGGUCGaCGc -5'
19031 3' -63.2 NC_004684.1 + 4158 0.66 0.374076
Target:  5'- cACCGuGgacGCGaUCAuGGCCCGGUUGCGc -3'
miRNA:   3'- -UGGC-CagcCGC-AGU-CCGGGUCGACGC- -5'
19031 3' -63.2 NC_004684.1 + 41673 0.66 0.373254
Target:  5'- gACCGG-CaGGCucaugauGUUGGGCaugCCAGCUGCGc -3'
miRNA:   3'- -UGGCCaG-CCG-------CAGUCCG---GGUCGACGC- -5'
19031 3' -63.2 NC_004684.1 + 51276 0.66 0.365907
Target:  5'- uGCUGG-CGGCGUaGGcGUCCAGCUcCGa -3'
miRNA:   3'- -UGGCCaGCCGCAgUC-CGGGUCGAcGC- -5'
19031 3' -63.2 NC_004684.1 + 4466 0.66 0.357862
Target:  5'- cGCUGGUCGGCuucGUCaccggccaGGGCCUGGCccGCc -3'
miRNA:   3'- -UGGCCAGCCG---CAG--------UCCGGGUCGa-CGc -5'
19031 3' -63.2 NC_004684.1 + 63471 0.66 0.357862
Target:  5'- uCCGGcauUCGGgGgcgCgAGGCcuCCAGCUGCGc -3'
miRNA:   3'- uGGCC---AGCCgCa--G-UCCG--GGUCGACGC- -5'
19031 3' -63.2 NC_004684.1 + 53938 0.66 0.357862
Target:  5'- cACCGuGUCGGC--CAGGCaCAGCUGa- -3'
miRNA:   3'- -UGGC-CAGCCGcaGUCCGgGUCGACgc -5'
19031 3' -63.2 NC_004684.1 + 41442 0.66 0.357862
Target:  5'- gGCCaGcUCGGCGUUGGGCaCCuuGUUGCc -3'
miRNA:   3'- -UGGcC-AGCCGCAGUCCG-GGu-CGACGc -5'
19031 3' -63.2 NC_004684.1 + 9884 0.66 0.349941
Target:  5'- cUCGGgaucCGGCG-CAGGCaCCuGCgUGCGg -3'
miRNA:   3'- uGGCCa---GCCGCaGUCCG-GGuCG-ACGC- -5'
19031 3' -63.2 NC_004684.1 + 57522 0.66 0.349941
Target:  5'- cCUGcG-CGGCGUCGGGaUCCGGCgGCa -3'
miRNA:   3'- uGGC-CaGCCGCAGUCC-GGGUCGaCGc -5'
19031 3' -63.2 NC_004684.1 + 59954 0.66 0.349156
Target:  5'- aGCCaGUCGGCGaaacgggUCAGuGCCUGGUaGCGc -3'
miRNA:   3'- -UGGcCAGCCGC-------AGUC-CGGGUCGaCGC- -5'
19031 3' -63.2 NC_004684.1 + 35622 0.67 0.345249
Target:  5'- cCCGGUCucggggucgauGGCGUaCAGGCCgacguacagggccguCGGCgGCGg -3'
miRNA:   3'- uGGCCAG-----------CCGCA-GUCCGG---------------GUCGaCGC- -5'
19031 3' -63.2 NC_004684.1 + 54372 0.67 0.342146
Target:  5'- uGCCGGgggCGGgGUCgAGGCCa---UGCGg -3'
miRNA:   3'- -UGGCCa--GCCgCAG-UCCGGgucgACGC- -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.