miRNA display CGI


Results 1 - 16 of 16 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
8533 3' -57.3 NC_002169.1 + 133520 0.66 0.86675
Target:  5'- gGUCGAuguuuuuuauUGCUCCUcuccgacucgGCCGugggauagugguugACGUCGAUGa -3'
miRNA:   3'- gCAGCU----------ACGGGGA----------CGGC--------------UGCAGCUAC- -5'
8533 3' -57.3 NC_002169.1 + 1048 0.66 0.861531
Target:  5'- -cUCGGUGCCgCUGCU--CGUCGAc- -3'
miRNA:   3'- gcAGCUACGGgGACGGcuGCAGCUac -5'
8533 3' -57.3 NC_002169.1 + 36410 0.66 0.861531
Target:  5'- uCGUCGAUGCCgUUGCCcgaGAUGggaaaCGAg- -3'
miRNA:   3'- -GCAGCUACGGgGACGG---CUGCa----GCUac -5'
8533 3' -57.3 NC_002169.1 + 85583 0.66 0.846082
Target:  5'- gCGUCGAauuugcGCCCCUuuUCGACGaCGAUGc -3'
miRNA:   3'- -GCAGCUa-----CGGGGAc-GGCUGCaGCUAC- -5'
8533 3' -57.3 NC_002169.1 + 81960 0.67 0.829874
Target:  5'- uCGUCGGUGUCgUcgaUGUCGACGUCa--- -3'
miRNA:   3'- -GCAGCUACGGgG---ACGGCUGCAGcuac -5'
8533 3' -57.3 NC_002169.1 + 123139 0.69 0.670413
Target:  5'- aCGUCGGUGCgCCCaucuuucgaGCCGGugaaauggUGUCGGUGg -3'
miRNA:   3'- -GCAGCUACG-GGGa--------CGGCU--------GCAGCUAC- -5'
8533 3' -57.3 NC_002169.1 + 77832 0.7 0.62396
Target:  5'- uCGUCGAagaaUGCCCC-GCCaaucauuuguuuaacGGCGUCGAg- -3'
miRNA:   3'- -GCAGCU----ACGGGGaCGG---------------CUGCAGCUac -5'
8533 3' -57.3 NC_002169.1 + 133487 0.71 0.609814
Target:  5'- gCGUCGGccaaaCCCUguaUGCCGACGcCGAUGg -3'
miRNA:   3'- -GCAGCUac---GGGG---ACGGCUGCaGCUAC- -5'
8533 3' -57.3 NC_002169.1 + 100998 0.72 0.549777
Target:  5'- gGUCG-UGCUUCUGCCGACGUaUGAc- -3'
miRNA:   3'- gCAGCuACGGGGACGGCUGCA-GCUac -5'
8533 3' -57.3 NC_002169.1 + 125439 0.76 0.34559
Target:  5'- uCGUCGAUGCCCUUGauGAcauguuCGUCGGUGc -3'
miRNA:   3'- -GCAGCUACGGGGACggCU------GCAGCUAC- -5'
8533 3' -57.3 NC_002169.1 + 6782 0.77 0.295164
Target:  5'- aCGUCGAUGCCgaUGUCGACaUCGAUGc -3'
miRNA:   3'- -GCAGCUACGGggACGGCUGcAGCUAC- -5'
8533 3' -57.3 NC_002169.1 + 75149 0.77 0.288446
Target:  5'- uGUCGAcgGUCCa-GCCGAUGUCGAUGg -3'
miRNA:   3'- gCAGCUa-CGGGgaCGGCUGCAGCUAC- -5'
8533 3' -57.3 NC_002169.1 + 75185 0.78 0.269015
Target:  5'- uGUCGAUGgUCCgGCCGAUGUCGAc- -3'
miRNA:   3'- gCAGCUACgGGGaCGGCUGCAGCUac -5'
8533 3' -57.3 NC_002169.1 + 59307 0.81 0.165414
Target:  5'- uCGUCGGUGCUgCUGCUGuuGUCGAUGa -3'
miRNA:   3'- -GCAGCUACGGgGACGGCugCAGCUAC- -5'
8533 3' -57.3 NC_002169.1 + 75221 0.84 0.107126
Target:  5'- uGUCGAUGgUCCgGCCGAUGUCGAUGg -3'
miRNA:   3'- gCAGCUACgGGGaCGGCUGCAGCUAC- -5'
8533 3' -57.3 NC_002169.1 + 6746 1.08 0.002618
Target:  5'- aCGUCGAUGCCCCUGCCGACGUCGAUGc -3'
miRNA:   3'- -GCAGCUACGGGGACGGCUGCAGCUAC- -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.