miRNA display CGI


Results 1 - 20 of 126 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
10963 3' -55.9 NC_002794.1 + 184699 0.88 0.109395
Target:  5'- gGCGGAggGUCGUCCgucggcucuucCGAGCGACAGGCCa -3'
miRNA:   3'- -UGCCU--CAGCAGGa----------GCUUGCUGUCCGG- -5'
10963 3' -55.9 NC_002794.1 + 38581 0.84 0.189241
Target:  5'- gACGGAGUCGgccgCCUccuccCGGACGAgAGGCCg -3'
miRNA:   3'- -UGCCUCAGCa---GGA-----GCUUGCUgUCCGG- -5'
10963 3' -55.9 NC_002794.1 + 145780 0.83 0.2084
Target:  5'- cGCGGAGUCGUCCccggccggcUCGGACGACGacGCCg -3'
miRNA:   3'- -UGCCUCAGCAGG---------AGCUUGCUGUc-CGG- -5'
10963 3' -55.9 NC_002794.1 + 65295 0.78 0.408537
Target:  5'- uCGGcGUCGUCCUCGAGaCGACAGcaccaacuccGCCu -3'
miRNA:   3'- uGCCuCAGCAGGAGCUU-GCUGUC----------CGG- -5'
10963 3' -55.9 NC_002794.1 + 177600 0.77 0.428961
Target:  5'- gGCGGAGccucgggucggucgaUCGcUCCUCG-ACGACgAGGCCg -3'
miRNA:   3'- -UGCCUC---------------AGC-AGGAGCuUGCUG-UCCGG- -5'
10963 3' -55.9 NC_002794.1 + 67937 0.77 0.434161
Target:  5'- gACGGGG-CGauggCCUCGAccgaggACGGCGGGCCc -3'
miRNA:   3'- -UGCCUCaGCa---GGAGCU------UGCUGUCCGG- -5'
10963 3' -55.9 NC_002794.1 + 68915 0.75 0.564341
Target:  5'- cGCGGGGcucgcggCGUCCUCGu-CGcccGCGGGCCg -3'
miRNA:   3'- -UGCCUCa------GCAGGAGCuuGC---UGUCCGG- -5'
10963 3' -55.9 NC_002794.1 + 53206 0.75 0.568252
Target:  5'- cCGGAcucGUCGUCgUCGAGCGGCGaaacgguccguccucGGCCc -3'
miRNA:   3'- uGCCU---CAGCAGgAGCUUGCUGU---------------CCGG- -5'
10963 3' -55.9 NC_002794.1 + 178279 0.74 0.583961
Target:  5'- gACGGGGUCGg--UCGAGCGAC-GGCUc -3'
miRNA:   3'- -UGCCUCAGCaggAGCUUGCUGuCCGG- -5'
10963 3' -55.9 NC_002794.1 + 30337 0.74 0.613621
Target:  5'- cCGaAGUCGauggccaccuUCC-CGAGCGACAGGCCc -3'
miRNA:   3'- uGCcUCAGC----------AGGaGCUUGCUGUCCGG- -5'
10963 3' -55.9 NC_002794.1 + 82058 0.74 0.613621
Target:  5'- gGCGGcGUCGUCCUCGGccuCG-CcGGCCc -3'
miRNA:   3'- -UGCCuCAGCAGGAGCUu--GCuGuCCGG- -5'
10963 3' -55.9 NC_002794.1 + 113649 0.74 0.623542
Target:  5'- aGCGGcccGG-CGUCCUCGGcguccagcgcgGCGAgCAGGCCc -3'
miRNA:   3'- -UGCC---UCaGCAGGAGCU-----------UGCU-GUCCGG- -5'
10963 3' -55.9 NC_002794.1 + 70875 0.74 0.623542
Target:  5'- gGCGGcAGcggCGgcUCCUCGAGCGcCAGGUCg -3'
miRNA:   3'- -UGCC-UCa--GC--AGGAGCUUGCuGUCCGG- -5'
10963 3' -55.9 NC_002794.1 + 101620 0.73 0.63347
Target:  5'- gGCGGGGgugccguuUCGUCCgCGAGCGuggGCGGGCg -3'
miRNA:   3'- -UGCCUC--------AGCAGGaGCUUGC---UGUCCGg -5'
10963 3' -55.9 NC_002794.1 + 110431 0.73 0.643397
Target:  5'- gGCGGcuGUCGUCgUCGGugGcGgAGGCCg -3'
miRNA:   3'- -UGCCu-CAGCAGgAGCUugC-UgUCCGG- -5'
10963 3' -55.9 NC_002794.1 + 135652 0.73 0.653316
Target:  5'- cGCGGAGggugggggggUGUCCUCc-ACGACGGGCa -3'
miRNA:   3'- -UGCCUCa---------GCAGGAGcuUGCUGUCCGg -5'
10963 3' -55.9 NC_002794.1 + 145911 0.73 0.653316
Target:  5'- -gGGAGUCGaCCgcgcCGAGCGGagGGGCCg -3'
miRNA:   3'- ugCCUCAGCaGGa---GCUUGCUg-UCCGG- -5'
10963 3' -55.9 NC_002794.1 + 103831 0.73 0.673097
Target:  5'- gUGGAGUCGcaggCCUUGAccacCGAgCGGGCCg -3'
miRNA:   3'- uGCCUCAGCa---GGAGCUu---GCU-GUCCGG- -5'
10963 3' -55.9 NC_002794.1 + 156941 0.72 0.731427
Target:  5'- cCGcGAGUCGgggCCUCGGagAUGAUuGGCCg -3'
miRNA:   3'- uGC-CUCAGCa--GGAGCU--UGCUGuCCGG- -5'
10963 3' -55.9 NC_002794.1 + 143724 0.71 0.740914
Target:  5'- gGCGGGcGUCGUCCUCGcccGCcgGACGcGCCg -3'
miRNA:   3'- -UGCCU-CAGCAGGAGCu--UG--CUGUcCGG- -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.