miRNA display CGI


Results 1 - 20 of 85 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
11002 3' -52.2 NC_002794.1 + 878 0.71 0.891705
Target:  5'- gGC-GGUCGgcGUGCGCGCGgGcCGggUg -3'
miRNA:   3'- -UGuCCAGCuuCAUGUGCGCgU-GCuuG- -5'
11002 3' -52.2 NC_002794.1 + 8923 0.66 0.990089
Target:  5'- aGCAGGUgGccGUGCGCaccUGCACGAu- -3'
miRNA:   3'- -UGUCCAgCuuCAUGUGc--GCGUGCUug -5'
11002 3' -52.2 NC_002794.1 + 9127 0.66 0.99131
Target:  5'- cCGGG-CGAcGaacCGCGCGCGCGAGa -3'
miRNA:   3'- uGUCCaGCUuCau-GUGCGCGUGCUUg -5'
11002 3' -52.2 NC_002794.1 + 17464 0.67 0.98561
Target:  5'- -gAGGUCGAAGguucgcuccACACGC-CGCGuuuGCg -3'
miRNA:   3'- ugUCCAGCUUCa--------UGUGCGcGUGCu--UG- -5'
11002 3' -52.2 NC_002794.1 + 25116 0.72 0.877722
Target:  5'- gACcGGUCGAgaucgagcggGGcACGCGCGCACGGu- -3'
miRNA:   3'- -UGuCCAGCU----------UCaUGUGCGCGUGCUug -5'
11002 3' -52.2 NC_002794.1 + 33224 0.69 0.94286
Target:  5'- gGCAGGUCucggacGAGUGgaACGCGCACGccAGCc -3'
miRNA:   3'- -UGUCCAGc-----UUCAUg-UGCGCGUGC--UUG- -5'
11002 3' -52.2 NC_002794.1 + 34227 0.66 0.988306
Target:  5'- cGCaAGGUgcaGGAGcUGCACGCGCggcugccgccgcagGCGGACc -3'
miRNA:   3'- -UG-UCCAg--CUUC-AUGUGCGCG--------------UGCUUG- -5'
11002 3' -52.2 NC_002794.1 + 34847 0.69 0.959344
Target:  5'- aGCGGGcgUCGGAGcGgGCGC-CGCGGGCg -3'
miRNA:   3'- -UGUCC--AGCUUCaUgUGCGcGUGCUUG- -5'
11002 3' -52.2 NC_002794.1 + 39592 0.71 0.91093
Target:  5'- aGCGGGUCGcGGccucgaccUACGCGCGCuCGAu- -3'
miRNA:   3'- -UGUCCAGCuUC--------AUGUGCGCGuGCUug -5'
11002 3' -52.2 NC_002794.1 + 41934 0.66 0.993394
Target:  5'- cCAGccCGAAGUGCACGCccucggcguGCGCGGc- -3'
miRNA:   3'- uGUCcaGCUUCAUGUGCG---------CGUGCUug -5'
11002 3' -52.2 NC_002794.1 + 43023 0.66 0.990089
Target:  5'- cGCAGGUCGucGgccuccauCGCGCgGCAggcCGAGCc -3'
miRNA:   3'- -UGUCCAGCuuCau------GUGCG-CGU---GCUUG- -5'
11002 3' -52.2 NC_002794.1 + 44133 0.73 0.805366
Target:  5'- gGCAGuGUagggcccgcucgagaGAAGUGCACGUGCACGGcGCg -3'
miRNA:   3'- -UGUC-CAg--------------CUUCAUGUGCGCGUGCU-UG- -5'
11002 3' -52.2 NC_002794.1 + 47780 0.76 0.657302
Target:  5'- cGCAGGUCGAgcggccgcAGUACACG-GUcucgGCGAACa -3'
miRNA:   3'- -UGUCCAGCU--------UCAUGUGCgCG----UGCUUG- -5'
11002 3' -52.2 NC_002794.1 + 49519 0.68 0.966213
Target:  5'- cCGGGUacauGGGUuCGCGCGCcGCGAGCa -3'
miRNA:   3'- uGUCCAgc--UUCAuGUGCGCG-UGCUUG- -5'
11002 3' -52.2 NC_002794.1 + 55955 0.68 0.97222
Target:  5'- aGCAGGaacggguaguagUCGAGGUggauggcguaGC-CGCGgGCGAGCa -3'
miRNA:   3'- -UGUCC------------AGCUUCA----------UGuGCGCgUGCUUG- -5'
11002 3' -52.2 NC_002794.1 + 56282 0.66 0.990089
Target:  5'- aGCAGG-CGGcagAGcacgAUGCGCGCGCGGucGCg -3'
miRNA:   3'- -UGUCCaGCU---UCa---UGUGCGCGUGCU--UG- -5'
11002 3' -52.2 NC_002794.1 + 59207 0.66 0.990089
Target:  5'- cGCAcGUCGgcGUcucggcCGCgGCGCGCGAGCu -3'
miRNA:   3'- -UGUcCAGCuuCAu-----GUG-CGCGUGCUUG- -5'
11002 3' -52.2 NC_002794.1 + 63502 0.66 0.992409
Target:  5'- cGCGGcGUCGucGUcCGCGacgccuccCGCGCGAGCc -3'
miRNA:   3'- -UGUC-CAGCuuCAuGUGC--------GCGUGCUUG- -5'
11002 3' -52.2 NC_002794.1 + 65115 0.67 0.987248
Target:  5'- --uGGUcCGAGGU-CGCGCGCcugucCGAGCu -3'
miRNA:   3'- uguCCA-GCUUCAuGUGCGCGu----GCUUG- -5'
11002 3' -52.2 NC_002794.1 + 69510 0.72 0.855089
Target:  5'- cGCAcGGUC-AGGUacgGCGCGUGCACGAGa -3'
miRNA:   3'- -UGU-CCAGcUUCA---UGUGCGCGUGCUUg -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.