miRNA display CGI


Results 1 - 20 of 241 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
13980 3' -64.3 NC_003521.1 + 240622 0.72 0.319555
Target:  5'- --cGGCggCGUGCGGCGGGcCGGccGGUCg -3'
miRNA:   3'- uaaCCG--GCGCGCCGCCCuGCCa-CCGG- -5'
13980 3' -64.3 NC_003521.1 + 239802 0.69 0.488879
Target:  5'- -cUGGCUGCGCGGCGuGAUGcgcgcguagaagccGUacGGCCg -3'
miRNA:   3'- uaACCGGCGCGCCGCcCUGC--------------CA--CCGG- -5'
13980 3' -64.3 NC_003521.1 + 239752 0.79 0.109115
Target:  5'- --gGGUCGCGCGGCGagagcuggcgcaGGuCGGUGGCCc -3'
miRNA:   3'- uaaCCGGCGCGCCGC------------CCuGCCACCGG- -5'
13980 3' -64.3 NC_003521.1 + 239428 0.71 0.353695
Target:  5'- cUUGGUCagcguccgcagcaGCGCGGgcuCGGGgacaGCGGUGGCCc -3'
miRNA:   3'- uAACCGG-------------CGCGCC---GCCC----UGCCACCGG- -5'
13980 3' -64.3 NC_003521.1 + 238462 0.72 0.326317
Target:  5'- --cGGCCucgGCG-GGCGGGGCGGagacgcGGCCc -3'
miRNA:   3'- uaaCCGG---CGCgCCGCCCUGCCa-----CCGG- -5'
13980 3' -64.3 NC_003521.1 + 237169 0.67 0.591961
Target:  5'- --cGGCCGCcgaggcagaCGGCGGcGGCcGUGGCa -3'
miRNA:   3'- uaaCCGGCGc--------GCCGCC-CUGcCACCGg -5'
13980 3' -64.3 NC_003521.1 + 236468 0.7 0.439267
Target:  5'- --gGGCCGCGaugagcgaaccgcCGGCGG--CGGUGGCg -3'
miRNA:   3'- uaaCCGGCGC-------------GCCGCCcuGCCACCGg -5'
13980 3' -64.3 NC_003521.1 + 232224 0.68 0.545545
Target:  5'- -gUGGCUGUGCGGCGucuguuguUGGUGGUg -3'
miRNA:   3'- uaACCGGCGCGCCGCccu-----GCCACCGg -5'
13980 3' -64.3 NC_003521.1 + 226358 0.67 0.573284
Target:  5'- --gGGuaGCGCcGCGGGAgCGGcGGCUg -3'
miRNA:   3'- uaaCCggCGCGcCGCCCU-GCCaCCGG- -5'
13980 3' -64.3 NC_003521.1 + 224429 0.66 0.676562
Target:  5'- --gGcGCUGCGUGGUGGGcgaGCGGUccaGGUg -3'
miRNA:   3'- uaaC-CGGCGCGCCGCCC---UGCCA---CCGg -5'
13980 3' -64.3 NC_003521.1 + 224023 0.69 0.482748
Target:  5'- --gGGcCCG-GCGGuCGGGGCGG-GcGCCg -3'
miRNA:   3'- uaaCC-GGCgCGCC-GCCCUGCCaC-CGG- -5'
13980 3' -64.3 NC_003521.1 + 223984 0.69 0.448459
Target:  5'- ---cGCCuGCGcCGGCGaGGACGGUcGGUCc -3'
miRNA:   3'- uaacCGG-CGC-GCCGC-CCUGCCA-CCGG- -5'
13980 3' -64.3 NC_003521.1 + 223925 0.67 0.620149
Target:  5'- gAUUGGagGCGCGGCcgagGGGGucgaGGcGGCCg -3'
miRNA:   3'- -UAACCggCGCGCCG----CCCUg---CCaCCGG- -5'
13980 3' -64.3 NC_003521.1 + 223720 0.68 0.545545
Target:  5'- ---cGCCGgguaCGaCGGCGGGucCGGUGGCg -3'
miRNA:   3'- uaacCGGC----GC-GCCGCCCu-GCCACCGg -5'
13980 3' -64.3 NC_003521.1 + 223087 0.69 0.481003
Target:  5'- --aGGCCagcgaacGUGCGuagaucuGCGGGAUGGcGGCCg -3'
miRNA:   3'- uaaCCGG-------CGCGC-------CGCCCUGCCaCCGG- -5'
13980 3' -64.3 NC_003521.1 + 222000 0.75 0.215582
Target:  5'- --gGGCaUGUGCGGCGuGGGCGGgaagcacuUGGCCa -3'
miRNA:   3'- uaaCCG-GCGCGCCGC-CCUGCC--------ACCGG- -5'
13980 3' -64.3 NC_003521.1 + 221811 0.66 0.638989
Target:  5'- --gGGCUcCGuCGGCGGGGCGGgcguGUCu -3'
miRNA:   3'- uaaCCGGcGC-GCCGCCCUGCCac--CGG- -5'
13980 3' -64.3 NC_003521.1 + 221360 0.66 0.629568
Target:  5'- -cUGGCCGCGCaGCGacAUGGUcccGCCg -3'
miRNA:   3'- uaACCGGCGCGcCGCccUGCCAc--CGG- -5'
13980 3' -64.3 NC_003521.1 + 218695 0.66 0.647464
Target:  5'- --cGGCgGCGaaggcggaggagaCGGCGGcGGCGGcgGGCg -3'
miRNA:   3'- uaaCCGgCGC-------------GCCGCC-CUGCCa-CCGg -5'
13980 3' -64.3 NC_003521.1 + 218619 0.71 0.384184
Target:  5'- --cGGCCgccagcGCGCGGCGGuaaGCGGccacGGCCg -3'
miRNA:   3'- uaaCCGG------CGCGCCGCCc--UGCCa---CCGG- -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.