miRNA display CGI


Results 1 - 20 of 29 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
26427 3' -55.1 NC_005345.2 + 47467 0.67 0.673344
Target:  5'- uGUCGGCGA--C-CU-GUGGGCGAUGc -3'
miRNA:   3'- gCAGCCGCUcuGuGAgCACUCGCUAC- -5'
26427 3' -55.1 NC_005345.2 + 12692 0.7 0.459286
Target:  5'- --aCGGCGAGagugGCGgUgGUGGGCGAUGc -3'
miRNA:   3'- gcaGCCGCUC----UGUgAgCACUCGCUAC- -5'
26427 3' -55.1 NC_005345.2 + 43514 0.71 0.41104
Target:  5'- uCG-CGGCGAacccGGCGCUCGcgGAGCGGa- -3'
miRNA:   3'- -GCaGCCGCU----CUGUGAGCa-CUCGCUac -5'
26427 3' -55.1 NC_005345.2 + 14328 0.74 0.301449
Target:  5'- aCGUCGGCGAGgggcaggcGCACggCGUGcGCGAg- -3'
miRNA:   3'- -GCAGCCGCUC--------UGUGa-GCACuCGCUac -5'
26427 3' -55.1 NC_005345.2 + 18192 0.77 0.194001
Target:  5'- cCGUCGGCGAGGCGCgCGccGAGUGGg- -3'
miRNA:   3'- -GCAGCCGCUCUGUGaGCa-CUCGCUac -5'
26427 3' -55.1 NC_005345.2 + 45026 1.09 0.000956
Target:  5'- aCGUCGGCGAGACACUCGUGAGCGAUGa -3'
miRNA:   3'- -GCAGCCGCUCUGUGAGCACUCGCUAC- -5'
26427 3' -55.1 NC_005345.2 + 22249 0.66 0.737882
Target:  5'- uCGaCGGCGAGGUGCUgcCGUGGGCGc-- -3'
miRNA:   3'- -GCaGCCGCUCUGUGA--GCACUCGCuac -5'
26427 3' -55.1 NC_005345.2 + 13267 0.66 0.737882
Target:  5'- --cCGGCGAGcaGCUCGUcGGCGAc- -3'
miRNA:   3'- gcaGCCGCUCugUGAGCAcUCGCUac -5'
26427 3' -55.1 NC_005345.2 + 7325 0.66 0.716674
Target:  5'- aGUCGGCG-GACGCcgagUCGcacGCGGUGu -3'
miRNA:   3'- gCAGCCGCuCUGUG----AGCacuCGCUAC- -5'
26427 3' -55.1 NC_005345.2 + 10074 0.66 0.695131
Target:  5'- aCGcCGuCGAGGCGCUCGUcauccgggccGAGCGGc- -3'
miRNA:   3'- -GCaGCcGCUCUGUGAGCA----------CUCGCUac -5'
26427 3' -55.1 NC_005345.2 + 25532 0.66 0.684262
Target:  5'- gCGUaagCGGCaGGGGCAgCUCGacGAGUGGUGg -3'
miRNA:   3'- -GCA---GCCG-CUCUGU-GAGCa-CUCGCUAC- -5'
26427 3' -55.1 NC_005345.2 + 4124 0.66 0.688616
Target:  5'- gGUUGGCGuucgagcggcugcucGcGGCGCUCGUcGAGCGGg- -3'
miRNA:   3'- gCAGCCGC---------------U-CUGUGAGCA-CUCGCUac -5'
26427 3' -55.1 NC_005345.2 + 37337 0.66 0.716674
Target:  5'- --aCGGCGAuGACccguCUCG-GAGCGAg- -3'
miRNA:   3'- gcaGCCGCU-CUGu---GAGCaCUCGCUac -5'
26427 3' -55.1 NC_005345.2 + 28713 0.68 0.606283
Target:  5'- gCGUCGGacggaacCGAGACGCUCGUcGGGUu--- -3'
miRNA:   3'- -GCAGCC-------GCUCUGUGAGCA-CUCGcuac -5'
26427 3' -55.1 NC_005345.2 + 43738 0.76 0.21241
Target:  5'- -cUCGGCGAGACGCUCGgccgaccgccgggccUGAGUGGa- -3'
miRNA:   3'- gcAGCCGCUCUGUGAGC---------------ACUCGCUac -5'
26427 3' -55.1 NC_005345.2 + 35843 0.74 0.27259
Target:  5'- gCG-CGGCGGGugGCUCGguucGGGCGggGg -3'
miRNA:   3'- -GCaGCCGCUCugUGAGCa---CUCGCuaC- -5'
26427 3' -55.1 NC_005345.2 + 41646 0.73 0.309022
Target:  5'- gGUCGGCGAGcCACUccagCGUGAGgGGc- -3'
miRNA:   3'- gCAGCCGCUCuGUGA----GCACUCgCUac -5'
26427 3' -55.1 NC_005345.2 + 22690 0.72 0.349051
Target:  5'- aCGUCGGCGuuuGGCugaUCGUGAGC-AUGu -3'
miRNA:   3'- -GCAGCCGCu--CUGug-AGCACUCGcUAC- -5'
26427 3' -55.1 NC_005345.2 + 19895 0.66 0.695131
Target:  5'- uGUUgcgGGCGAGccgcuGCGCaUCGcGGGCGAUGa -3'
miRNA:   3'- gCAG---CCGCUC-----UGUG-AGCaCUCGCUAC- -5'
26427 3' -55.1 NC_005345.2 + 29530 0.68 0.618378
Target:  5'- uCGUCGGCgucGAGGUACUCGgGGGCGu-- -3'
miRNA:   3'- -GCAGCCG---CUCUGUGAGCaCUCGCuac -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.