miRNA display CGI


Results 1 - 20 of 36 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
23455 3' -53.3 NC_005259.1 + 30616 0.66 0.866611
Target:  5'- cUCGCCGUUucuGGUGAUCGA--GUGAa -3'
miRNA:   3'- uAGUGGCGGuu-CCACUAGUUgcCACU- -5'
23455 3' -53.3 NC_005259.1 + 25925 0.66 0.866611
Target:  5'- -cCGCCGCCGGuccGGUGAgcgCAcgcCGGUGc -3'
miRNA:   3'- uaGUGGCGGUU---CCACUa--GUu--GCCACu -5'
23455 3' -53.3 NC_005259.1 + 4471 0.66 0.858394
Target:  5'- -----gGCCAAGGccAUCGGCGGUGGa -3'
miRNA:   3'- uaguggCGGUUCCacUAGUUGCCACU- -5'
23455 3' -53.3 NC_005259.1 + 6172 0.66 0.849937
Target:  5'- --aACgGUCGAGGUGAccaAugGGUGAu -3'
miRNA:   3'- uagUGgCGGUUCCACUag-UugCCACU- -5'
23455 3' -53.3 NC_005259.1 + 36526 0.66 0.849079
Target:  5'- -cCAcCCGCgcggugugacacgCGGGGUGAUCuGCGGUGu -3'
miRNA:   3'- uaGU-GGCG-------------GUUCCACUAGuUGCCACu -5'
23455 3' -53.3 NC_005259.1 + 43886 0.66 0.849079
Target:  5'- cGUUGCCGCCGAcauugcccgcgccGGcUGAUCGAUGGg-- -3'
miRNA:   3'- -UAGUGGCGGUU-------------CC-ACUAGUUGCCacu -5'
23455 3' -53.3 NC_005259.1 + 47167 0.66 0.832338
Target:  5'- gAUCACCGUagcGGcgaaGGUCGGCGGUGc -3'
miRNA:   3'- -UAGUGGCGguuCCa---CUAGUUGCCACu -5'
23455 3' -53.3 NC_005259.1 + 47467 0.66 0.823213
Target:  5'- gGUCAgCCaCCGAGGUGAUCGcgucaccgaggcGCGGcagGAa -3'
miRNA:   3'- -UAGU-GGcGGUUCCACUAGU------------UGCCa--CU- -5'
23455 3' -53.3 NC_005259.1 + 19154 0.66 0.822289
Target:  5'- -aCACCGaUCAGGGUcGAgguucgucggcgcUCAACGGUGc -3'
miRNA:   3'- uaGUGGC-GGUUCCA-CU-------------AGUUGCCACu -5'
23455 3' -53.3 NC_005259.1 + 25190 0.66 0.822289
Target:  5'- -cCGCCGCCGAucccaccGG-GGUCAGCGGc-- -3'
miRNA:   3'- uaGUGGCGGUU-------CCaCUAGUUGCCacu -5'
23455 3' -53.3 NC_005259.1 + 2007 0.67 0.813885
Target:  5'- -aCGCgGCCAucGGGUGGcgcaccggcaccUCAguGCGGUGGg -3'
miRNA:   3'- uaGUGgCGGU--UCCACU------------AGU--UGCCACU- -5'
23455 3' -53.3 NC_005259.1 + 45177 0.67 0.813885
Target:  5'- uGUUGCgCGCCGAGG---UCAgcGCGGUGAu -3'
miRNA:   3'- -UAGUG-GCGGUUCCacuAGU--UGCCACU- -5'
23455 3' -53.3 NC_005259.1 + 3804 0.67 0.804363
Target:  5'- gAUUGCCGCCAccaAGGUGAcCAcccACGGg-- -3'
miRNA:   3'- -UAGUGGCGGU---UCCACUaGU---UGCCacu -5'
23455 3' -53.3 NC_005259.1 + 37476 0.67 0.804363
Target:  5'- -aCGCCGCCGuuGGcUGAcccaccccCGGCGGUGAg -3'
miRNA:   3'- uaGUGGCGGUu-CC-ACUa-------GUUGCCACU- -5'
23455 3' -53.3 NC_005259.1 + 36440 0.67 0.804363
Target:  5'- -gCGUCGCCGAGGUcGAccgcgUCGAgGGUGAg -3'
miRNA:   3'- uaGUGGCGGUUCCA-CU-----AGUUgCCACU- -5'
23455 3' -53.3 NC_005259.1 + 8698 0.67 0.774745
Target:  5'- uGUCGCUGUCGAGGUcGUC-GCGGUc- -3'
miRNA:   3'- -UAGUGGCGGUUCCAcUAGuUGCCAcu -5'
23455 3' -53.3 NC_005259.1 + 55037 0.67 0.774745
Target:  5'- --gGCUGCCGAGGUGcuugCcuCGGUGGc -3'
miRNA:   3'- uagUGGCGGUUCCACua--GuuGCCACU- -5'
23455 3' -53.3 NC_005259.1 + 20972 0.68 0.764558
Target:  5'- -gUAUCGCCGGGGUGA-CAacuGCGuGUGGg -3'
miRNA:   3'- uaGUGGCGGUUCCACUaGU---UGC-CACU- -5'
23455 3' -53.3 NC_005259.1 + 41481 0.68 0.764558
Target:  5'- -aCGCCGUCGAGcacGAccUCGGCGGUGGc -3'
miRNA:   3'- uaGUGGCGGUUCca-CU--AGUUGCCACU- -5'
23455 3' -53.3 NC_005259.1 + 30004 0.68 0.743782
Target:  5'- gGUCACCacgaCAAGGUGAcCAccgccgggGCGGUGGg -3'
miRNA:   3'- -UAGUGGcg--GUUCCACUaGU--------UGCCACU- -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.