miRNA display CGI


Results 1 - 15 of 15 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
16319 3' -52.8 NC_004084.1 + 45539 0.66 0.881804
Target:  5'- cCGGGA--UGGGuuGGCGCgaggaccucgAAGCGGa -3'
miRNA:   3'- -GCCCUuaGCCCuuCUGUGa---------UUCGCCc -5'
16319 3' -52.8 NC_004084.1 + 43738 0.66 0.858015
Target:  5'- uGGGccAAUCGaGGAcccggccgGGACGCUc-GCGGGc -3'
miRNA:   3'- gCCC--UUAGC-CCU--------UCUGUGAuuCGCCC- -5'
16319 3' -52.8 NC_004084.1 + 41258 0.67 0.831205
Target:  5'- -cGGAAUCGGGAugaugacGGACuauaucugcucgGCUGAgugcauGCGGGa -3'
miRNA:   3'- gcCCUUAGCCCU-------UCUG------------UGAUU------CGCCC- -5'
16319 3' -52.8 NC_004084.1 + 54490 0.67 0.813762
Target:  5'- gGGGAugauGUCGGGu--GCGCcguAGUGGGg -3'
miRNA:   3'- gCCCU----UAGCCCuucUGUGau-UCGCCC- -5'
16319 3' -52.8 NC_004084.1 + 31971 0.67 0.8043
Target:  5'- uGGcGGUCGGGAAGuUugUagccgccaGAGCGGGc -3'
miRNA:   3'- gCCcUUAGCCCUUCuGugA--------UUCGCCC- -5'
16319 3' -52.8 NC_004084.1 + 4005 0.69 0.733628
Target:  5'- uGGGAAUCGGu-AGACAUgAGGCGu- -3'
miRNA:   3'- gCCCUUAGCCcuUCUGUGaUUCGCcc -5'
16319 3' -52.8 NC_004084.1 + 44709 0.69 0.712348
Target:  5'- -cGGAGUCGGGGAucucuGGCAuccCUucGCGGGc -3'
miRNA:   3'- gcCCUUAGCCCUU-----CUGU---GAuuCGCCC- -5'
16319 3' -52.8 NC_004084.1 + 3617 0.7 0.684224
Target:  5'- gCGGGGgcgucAUCGGGAcuauggagggcgaucAGuaGCGCUG-GCGGGg -3'
miRNA:   3'- -GCCCU-----UAGCCCU---------------UC--UGUGAUuCGCCC- -5'
16319 3' -52.8 NC_004084.1 + 1027 0.7 0.657959
Target:  5'- gCGGGAcucgaguacaaGUCGGGAuuccgAGGCAuCUGGGCGa- -3'
miRNA:   3'- -GCCCU-----------UAGCCCU-----UCUGU-GAUUCGCcc -5'
16319 3' -52.8 NC_004084.1 + 5071 0.71 0.613948
Target:  5'- aGGuGuucCGGGAGGGCGgUGAGCGGu -3'
miRNA:   3'- gCC-CuuaGCCCUUCUGUgAUUCGCCc -5'
16319 3' -52.8 NC_004084.1 + 31678 0.71 0.579979
Target:  5'- uGGccGUCGGGAAGuuCGCUgugggccGAGCGGGc -3'
miRNA:   3'- gCCcuUAGCCCUUCu-GUGA-------UUCGCCC- -5'
16319 3' -52.8 NC_004084.1 + 12504 0.72 0.559348
Target:  5'- uCGGGAucgaccuccUCGGaGAAGuACGCUAAGCaGGa -3'
miRNA:   3'- -GCCCUu--------AGCC-CUUC-UGUGAUUCGcCC- -5'
16319 3' -52.8 NC_004084.1 + 39071 0.73 0.485523
Target:  5'- aGGGcGAUCGGaucucgcgaGAAGAgGCUGAGCGGc -3'
miRNA:   3'- gCCC-UUAGCC---------CUUCUgUGAUUCGCCc -5'
16319 3' -52.8 NC_004084.1 + 33006 0.74 0.435737
Target:  5'- uCGGGAugcggAUCGGGGAGAuCGCccacaugAAGCGGa -3'
miRNA:   3'- -GCCCU-----UAGCCCUUCU-GUGa------UUCGCCc -5'
16319 3' -52.8 NC_004084.1 + 24288 1.1 0.001939
Target:  5'- uCGGGAAUCGGGAAGACACUAAGCGGGc -3'
miRNA:   3'- -GCCCUUAGCCCUUCUGUGAUUCGCCC- -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.