miRNA display CGI


Results 1 - 20 of 40 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
24959 3' -58.5 NC_005284.1 + 19228 0.67 0.496524
Target:  5'- uGGCGCAGUccu--ACGCCGAucugaacggacGCGUCg -3'
miRNA:   3'- gCCGCGUCAcccguUGCGGCU-----------UGCAG- -5'
24959 3' -58.5 NC_005284.1 + 30928 0.68 0.418926
Target:  5'- gGGCGCcGUGGcGCuuuCGCCGccGGCGaUCa -3'
miRNA:   3'- gCCGCGuCACC-CGuu-GCGGC--UUGC-AG- -5'
24959 3' -58.5 NC_005284.1 + 16146 0.68 0.418926
Target:  5'- -cGCGCAGccgugGGGCAcauCGCUGAuggggcucggcGCGUCg -3'
miRNA:   3'- gcCGCGUCa----CCCGUu--GCGGCU-----------UGCAG- -5'
24959 3' -58.5 NC_005284.1 + 42256 0.68 0.418926
Target:  5'- aCGaGCGUu-UGGGCGaguguGCGCCGGuCGUCg -3'
miRNA:   3'- -GC-CGCGucACCCGU-----UGCGGCUuGCAG- -5'
24959 3' -58.5 NC_005284.1 + 21831 0.68 0.444314
Target:  5'- cCGGCGCuuccagcgccgccgGcGUGGGCGAuggugcCGCCGccuaugcaGACGUCg -3'
miRNA:   3'- -GCCGCG--------------U-CACCCGUU------GCGGC--------UUGCAG- -5'
24959 3' -58.5 NC_005284.1 + 50831 0.67 0.466607
Target:  5'- uGGC-CGuUGGGUGGgGCCGGGCGUUu -3'
miRNA:   3'- gCCGcGUcACCCGUUgCGGCUUGCAG- -5'
24959 3' -58.5 NC_005284.1 + 17742 0.67 0.474495
Target:  5'- aGGCGCAGgcgcaccggcucGGGCGcugGCuGCUGcuGACGUCg -3'
miRNA:   3'- gCCGCGUCa-----------CCCGU---UG-CGGC--UUGCAG- -5'
24959 3' -58.5 NC_005284.1 + 7643 0.67 0.476478
Target:  5'- uGGUGCGucaguacacGUGGGCGGCGUCG---GUCa -3'
miRNA:   3'- gCCGCGU---------CACCCGUUGCGGCuugCAG- -5'
24959 3' -58.5 NC_005284.1 + 11567 0.67 0.48345
Target:  5'- gGaGCGCAGUGcGCAgaucgacgcggaGCucggcgacuacgcgGCCGAGCGUCa -3'
miRNA:   3'- gC-CGCGUCACcCGU------------UG--------------CGGCUUGCAG- -5'
24959 3' -58.5 NC_005284.1 + 32806 0.68 0.400698
Target:  5'- -uGCGCGGguugcgGGGCGGCGUCGGuuACGg- -3'
miRNA:   3'- gcCGCGUCa-----CCCGUUGCGGCU--UGCag -5'
24959 3' -58.5 NC_005284.1 + 12282 0.69 0.391775
Target:  5'- gCGcCGCAGUGGuGUcGCaGCCGGGCGUg -3'
miRNA:   3'- -GCcGCGUCACC-CGuUG-CGGCUUGCAg -5'
24959 3' -58.5 NC_005284.1 + 45970 0.69 0.373465
Target:  5'- uGGCGCAGcGuGGCGugGaCGAguggauuGCGUCa -3'
miRNA:   3'- gCCGCGUCaC-CCGUugCgGCU-------UGCAG- -5'
24959 3' -58.5 NC_005284.1 + 21377 0.74 0.191556
Target:  5'- uCGGcCGCAGUGGGUGACuGCUGGcgGUCg -3'
miRNA:   3'- -GCC-GCGUCACCCGUUG-CGGCUugCAG- -5'
24959 3' -58.5 NC_005284.1 + 33251 0.73 0.207192
Target:  5'- aGGCGCaccgccuccgcAGUGGGCGAUGCUGccgcGCGUg -3'
miRNA:   3'- gCCGCG-----------UCACCCGUUGCGGCu---UGCAg -5'
24959 3' -58.5 NC_005284.1 + 46322 0.72 0.235096
Target:  5'- uGGCGgA-UGGGCGACGCcCGAcugcaacACGUCg -3'
miRNA:   3'- gCCGCgUcACCCGUUGCG-GCU-------UGCAG- -5'
24959 3' -58.5 NC_005284.1 + 14599 0.72 0.241779
Target:  5'- uCGGCGCgaaAGUGuucCGGCGCCGAACGcUCg -3'
miRNA:   3'- -GCCGCG---UCACcc-GUUGCGGCUUGC-AG- -5'
24959 3' -58.5 NC_005284.1 + 46396 0.71 0.274165
Target:  5'- aGGUGaucacaUGGGCAACGCCGGAUG-Ca -3'
miRNA:   3'- gCCGCguc---ACCCGUUGCGGCUUGCaG- -5'
24959 3' -58.5 NC_005284.1 + 9500 0.7 0.309935
Target:  5'- gCGGCGaCAgcGUGGGuCGGCGCCcggcGAGCGcUCg -3'
miRNA:   3'- -GCCGC-GU--CACCC-GUUGCGG----CUUGC-AG- -5'
24959 3' -58.5 NC_005284.1 + 24237 0.69 0.34915
Target:  5'- gCGGUGUGGUGGGauuuAC-CCGAuCGUCa -3'
miRNA:   3'- -GCCGCGUCACCCgu--UGcGGCUuGCAG- -5'
24959 3' -58.5 NC_005284.1 + 4482 0.69 0.365797
Target:  5'- uGGCucGCGGcgGcGGUAGCGCCGAAC-UCg -3'
miRNA:   3'- gCCG--CGUCa-C-CCGUUGCGGCUUGcAG- -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.