miRNA display CGI


Results 1 - 20 of 23 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
23418 3' -50.8 NC_005259.1 + 53535 0.66 0.961689
Target:  5'- aCGGGcUCGgugccCGGUGUCGGC-UCGGGc -3'
miRNA:   3'- aGUUCcAGUa----GCCACAGCUGuAGCUC- -5'
23418 3' -50.8 NC_005259.1 + 10770 0.66 0.953639
Target:  5'- gUCGggcGGGUCAUCGaG-GUgGGCcgCGAGc -3'
miRNA:   3'- -AGU---UCCAGUAGC-CaCAgCUGuaGCUC- -5'
23418 3' -50.8 NC_005259.1 + 57061 0.67 0.939548
Target:  5'- aCAccGUgAUCGG-GUCGaacGCGUCGAGg -3'
miRNA:   3'- aGUucCAgUAGCCaCAGC---UGUAGCUC- -5'
23418 3' -50.8 NC_005259.1 + 10927 0.67 0.934299
Target:  5'- aCAAGcUCGgcgaacUCGGUGUCGACcucGUCGGu -3'
miRNA:   3'- aGUUCcAGU------AGCCACAGCUG---UAGCUc -5'
23418 3' -50.8 NC_005259.1 + 9468 0.67 0.934299
Target:  5'- gCAcGGUCAcgUCaGUGUUGucgcGCAUCGAGg -3'
miRNA:   3'- aGUuCCAGU--AGcCACAGC----UGUAGCUC- -5'
23418 3' -50.8 NC_005259.1 + 19166 0.67 0.916249
Target:  5'- gUCGAGGuUCGUCGGcGcucaacggugcccUCGACAgCGAGc -3'
miRNA:   3'- -AGUUCC-AGUAGCCaC-------------AGCUGUaGCUC- -5'
23418 3' -50.8 NC_005259.1 + 23003 0.68 0.910505
Target:  5'- cCGAGGUCAccgaggacggcUCGGUcaUCGAgAUCGAa -3'
miRNA:   3'- aGUUCCAGU-----------AGCCAc-AGCUgUAGCUc -5'
23418 3' -50.8 NC_005259.1 + 8705 0.68 0.889752
Target:  5'- gUCGAGGUCGUCGcggucaagcGUGUCGgucaugucagGCAgucagcccgUCGAGg -3'
miRNA:   3'- -AGUUCCAGUAGC---------CACAGC----------UGU---------AGCUC- -5'
23418 3' -50.8 NC_005259.1 + 5293 0.69 0.873795
Target:  5'- aUCGA-GUCAcCGGUGgccucacUCGACAUCGAc -3'
miRNA:   3'- -AGUUcCAGUaGCCAC-------AGCUGUAGCUc -5'
23418 3' -50.8 NC_005259.1 + 12372 0.69 0.866611
Target:  5'- cCGAGGUaGUCGGcGagagCGGCAUCGAa -3'
miRNA:   3'- aGUUCCAgUAGCCaCa---GCUGUAGCUc -5'
23418 3' -50.8 NC_005259.1 + 2130 0.69 0.864987
Target:  5'- cCGAGGUCAcgcagacccgcaCGGUGcuggccagCGGCGUCGAGc -3'
miRNA:   3'- aGUUCCAGUa-----------GCCACa-------GCUGUAGCUC- -5'
23418 3' -50.8 NC_005259.1 + 42031 0.69 0.858394
Target:  5'- -gAGGGUUGUCGG-GUCGACugcgcuguccUCGGGg -3'
miRNA:   3'- agUUCCAGUAGCCaCAGCUGu---------AGCUC- -5'
23418 3' -50.8 NC_005259.1 + 28632 0.69 0.841249
Target:  5'- cCAAGGcCAcCGGUGcCGACAccgcCGAGg -3'
miRNA:   3'- aGUUCCaGUaGCCACaGCUGUa---GCUC- -5'
23418 3' -50.8 NC_005259.1 + 34575 0.7 0.823213
Target:  5'- gCGAGGUucucggacaggCAgacgcgCGGUGUCGACAUCa-- -3'
miRNA:   3'- aGUUCCA-----------GUa-----GCCACAGCUGUAGcuc -5'
23418 3' -50.8 NC_005259.1 + 27636 0.71 0.784782
Target:  5'- gCAAGuccucguucuuGcCGUCGGacgUGUCGACAUCGAGc -3'
miRNA:   3'- aGUUC-----------CaGUAGCC---ACAGCUGUAGCUC- -5'
23418 3' -50.8 NC_005259.1 + 54331 0.72 0.733216
Target:  5'- cUCGGGGcCAUCGG-GcCaGCAUCGAGg -3'
miRNA:   3'- -AGUUCCaGUAGCCaCaGcUGUAGCUC- -5'
23418 3' -50.8 NC_005259.1 + 65305 0.74 0.61273
Target:  5'- gCAAGGUCAUCGagcuGUGcgaagaguUCGAUGUCGAGc -3'
miRNA:   3'- aGUUCCAGUAGC----CAC--------AGCUGUAGCUC- -5'
23418 3' -50.8 NC_005259.1 + 45186 0.74 0.579648
Target:  5'- cCGAGGUCAgcgCGGUGaUGACGggCGAGu -3'
miRNA:   3'- aGUUCCAGUa--GCCACaGCUGUa-GCUC- -5'
23418 3' -50.8 NC_005259.1 + 3182 0.75 0.557798
Target:  5'- gUCAAGGUCGUCGGUGcgcgcaccaCGAUGUgGGGc -3'
miRNA:   3'- -AGUUCCAGUAGCCACa--------GCUGUAgCUC- -5'
23418 3' -50.8 NC_005259.1 + 17355 0.75 0.53619
Target:  5'- gUCGAGGUCGgcggcUCGGcgcugGUCGugGUCGAc -3'
miRNA:   3'- -AGUUCCAGU-----AGCCa----CAGCugUAGCUc -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.