miRNA display CGI


Results 1 - 20 of 45 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
9258 3' -54.7 NC_002512.2 + 93366 0.73 0.726558
Target:  5'- uGCAGUCccgggaGGGGAUCGGGCCGcaggGC-GCGc -3'
miRNA:   3'- -CGUCAG------CCUCUAGCUCGGCa---CGaUGC- -5'
9258 3' -54.7 NC_002512.2 + 28576 0.67 0.961496
Target:  5'- gGCAGaCGGAgcuGAUcCGAGCgGUGC-GCGu -3'
miRNA:   3'- -CGUCaGCCU---CUA-GCUCGgCACGaUGC- -5'
9258 3' -54.7 NC_002512.2 + 102122 0.67 0.967882
Target:  5'- gGCcGUCGGAGGggGAcccugGCCGU-CUACGg -3'
miRNA:   3'- -CGuCAGCCUCUagCU-----CGGCAcGAUGC- -5'
9258 3' -54.7 NC_002512.2 + 18676 0.66 0.980494
Target:  5'- --cGUCGGAGAggaaGAGCuCGUGg-GCGg -3'
miRNA:   3'- cguCAGCCUCUag--CUCG-GCACgaUGC- -5'
9258 3' -54.7 NC_002512.2 + 26663 0.7 0.869766
Target:  5'- -aGGUCGGGGGcgggcUCGAagcggcagacguacGCCGUGCUgGCGg -3'
miRNA:   3'- cgUCAGCCUCU-----AGCU--------------CGGCACGA-UGC- -5'
9258 3' -54.7 NC_002512.2 + 87825 0.7 0.892368
Target:  5'- gGCGGUCGGAGGggcCGAGgCGaaaUGCgccgagGCGa -3'
miRNA:   3'- -CGUCAGCCUCUa--GCUCgGC---ACGa-----UGC- -5'
9258 3' -54.7 NC_002512.2 + 41226 0.7 0.898758
Target:  5'- cGCGGUCGGAcGA-CGGGCCGccGCcGCc -3'
miRNA:   3'- -CGUCAGCCU-CUaGCUCGGCa-CGaUGc -5'
9258 3' -54.7 NC_002512.2 + 93603 0.68 0.937709
Target:  5'- cGUGGUCGGGGAagaacggccguuggaCGGGCgCGUGCU-CGg -3'
miRNA:   3'- -CGUCAGCCUCUa--------------GCUCG-GCACGAuGC- -5'
9258 3' -54.7 NC_002512.2 + 60032 1.12 0.004499
Target:  5'- gGCAGUCGGAGAUCGAGCCGUGCUACGg -3'
miRNA:   3'- -CGUCAGCCUCUAGCUCGGCACGAUGC- -5'
9258 3' -54.7 NC_002512.2 + 80012 0.67 0.957995
Target:  5'- gGCAGcCGGAGccggaCGAGgCGUcGCUGCu -3'
miRNA:   3'- -CGUCaGCCUCua---GCUCgGCA-CGAUGc -5'
9258 3' -54.7 NC_002512.2 + 3802 0.68 0.946203
Target:  5'- aGCAGUCccGAGAgCGAGCCGUcg-ACGg -3'
miRNA:   3'- -CGUCAGc-CUCUaGCUCGGCAcgaUGC- -5'
9258 3' -54.7 NC_002512.2 + 82031 0.68 0.946203
Target:  5'- -gGGUCGG-GGUCGcGCCG-GCgGCGg -3'
miRNA:   3'- cgUCAGCCuCUAGCuCGGCaCGaUGC- -5'
9258 3' -54.7 NC_002512.2 + 137777 0.72 0.791413
Target:  5'- cGCGGUCuGGAGGUCGgcgcucggcgGGCCGcGCguccgGCGg -3'
miRNA:   3'- -CGUCAG-CCUCUAGC----------UCGGCaCGa----UGC- -5'
9258 3' -54.7 NC_002512.2 + 23472 0.68 0.946203
Target:  5'- cGCA--CGGAGAUgaugcCGAGCaugcugGUGCUGCGg -3'
miRNA:   3'- -CGUcaGCCUCUA-----GCUCGg-----CACGAUGC- -5'
9258 3' -54.7 NC_002512.2 + 73907 0.71 0.84963
Target:  5'- uCAGcgCGGGGA-CGuacaGGCCGUGCUGCu -3'
miRNA:   3'- cGUCa-GCCUCUaGC----UCGGCACGAUGc -5'
9258 3' -54.7 NC_002512.2 + 158359 0.68 0.941833
Target:  5'- aCAGUCGccuuuUCGGGCCGUGUUGuCGa -3'
miRNA:   3'- cGUCAGCcucu-AGCUCGGCACGAU-GC- -5'
9258 3' -54.7 NC_002512.2 + 36582 0.68 0.946203
Target:  5'- gGCGGU-GGAGAccuccaggaGAGCC-UGCUGCGa -3'
miRNA:   3'- -CGUCAgCCUCUag-------CUCGGcACGAUGC- -5'
9258 3' -54.7 NC_002512.2 + 96280 0.67 0.964791
Target:  5'- gGCAGgCGGGGGggcugccgCGGGCCGccGCcGCGg -3'
miRNA:   3'- -CGUCaGCCUCUa-------GCUCGGCa-CGaUGC- -5'
9258 3' -54.7 NC_002512.2 + 71409 0.7 0.864683
Target:  5'- cGCccccgCGGAGAUCGuGCUGagGCUGCGc -3'
miRNA:   3'- -CGuca--GCCUCUAGCuCGGCa-CGAUGC- -5'
9258 3' -54.7 NC_002512.2 + 27522 0.7 0.898129
Target:  5'- aGC-GUCGGAGGcggcucagaccaaUCGAGCCGggcGCUAa- -3'
miRNA:   3'- -CGuCAGCCUCU-------------AGCUCGGCa--CGAUgc -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.