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
28417 3' -53.5 NC_005946.1 + 74665 1.1 0.002901
Target:  5'- gUCUCCCGUGGACCUAAAGUCCGACAGg -3'
miRNA:   3'- -AGAGGGCACCUGGAUUUCAGGCUGUC- -5'
28417 3' -53.5 NC_005946.1 + 62647 0.7 0.749302
Target:  5'- -aUCCCGUcGGACCUcuuGGUgaCUGACGGg -3'
miRNA:   3'- agAGGGCA-CCUGGAuu-UCA--GGCUGUC- -5'
28417 3' -53.5 NC_005946.1 + 61859 0.7 0.755278
Target:  5'- cCUCCCGacgcccugcccagGGACCUGuaugugacGGGUCCGGCu- -3'
miRNA:   3'- aGAGGGCa------------CCUGGAU--------UUCAGGCUGuc -5'
28417 3' -53.5 NC_005946.1 + 36612 0.7 0.75825
Target:  5'- gUCUCCCaugccgaGUGGACCgccaccGGGUCCGAa-- -3'
miRNA:   3'- -AGAGGG-------CACCUGGau----UUCAGGCUguc -5'
28417 3' -53.5 NC_005946.1 + 104350 0.7 0.788284
Target:  5'- aUCUCCuCG-GGAgCUucgcAGUCUGACAGa -3'
miRNA:   3'- -AGAGG-GCaCCUgGAuu--UCAGGCUGUC- -5'
28417 3' -53.5 NC_005946.1 + 94623 0.69 0.824858
Target:  5'- cCUCCCGUGGAguaCCUGAcGUUCucgGGCAa -3'
miRNA:   3'- aGAGGGCACCU---GGAUUuCAGG---CUGUc -5'
28417 3' -53.5 NC_005946.1 + 43672 0.68 0.858432
Target:  5'- -gUCCCGUagagGGACCccAGGUCCGAg-- -3'
miRNA:   3'- agAGGGCA----CCUGGauUUCAGGCUguc -5'
28417 3' -53.5 NC_005946.1 + 10298 0.67 0.888507
Target:  5'- cUCUCaCCGgaucgGGagcGCCggggcauAGUCCGACGGg -3'
miRNA:   3'- -AGAG-GGCa----CC---UGGauu----UCAGGCUGUC- -5'
28417 3' -53.5 NC_005946.1 + 88075 0.67 0.895432
Target:  5'- cCUCCUGaaaGaGuACCUAGAGUCUGugGGa -3'
miRNA:   3'- aGAGGGCa--C-C-UGGAUUUCAGGCugUC- -5'
28417 3' -53.5 NC_005946.1 + 12572 0.67 0.914717
Target:  5'- gUCUCCCGUGGAgaCCauaGGAGagaCGGCAa -3'
miRNA:   3'- -AGAGGGCACCU--GGa--UUUCag-GCUGUc -5'
28417 3' -53.5 NC_005946.1 + 60304 0.66 0.925749
Target:  5'- -gUCCuUGUaGACCcacacguUAAAGUCCGACGGg -3'
miRNA:   3'- agAGG-GCAcCUGG-------AUUUCAGGCUGUC- -5'
28417 3' -53.5 NC_005946.1 + 102096 0.66 0.926304
Target:  5'- --gUCCGUcaGGACCUGcaccgucucgGGGUCCGuCAGg -3'
miRNA:   3'- agaGGGCA--CCUGGAU----------UUCAGGCuGUC- -5'
28417 3' -53.5 NC_005946.1 + 78937 0.66 0.926304
Target:  5'- gUCUCCCGUcuGCCUGgcGUCgGGCu- -3'
miRNA:   3'- -AGAGGGCAccUGGAUuuCAGgCUGuc -5'
28417 3' -53.5 NC_005946.1 + 49030 0.66 0.931713
Target:  5'- cUCUgacaCCGUcacguacacGGGCCUAGAGUCCugguACAGg -3'
miRNA:   3'- -AGAg---GGCA---------CCUGGAUUUCAGGc---UGUC- -5'
28417 3' -53.5 NC_005946.1 + 17913 0.66 0.931713
Target:  5'- gCUCuuGUuguuGGGCCUcAGGUCaGACAGc -3'
miRNA:   3'- aGAGggCA----CCUGGAuUUCAGgCUGUC- -5'
28417 3' -53.5 NC_005946.1 + 89774 0.66 0.943652
Target:  5'- cCUCUCGUagacaaagagggucaGGACCUGGGgaguGUCgGGCAGc -3'
miRNA:   3'- aGAGGGCA---------------CCUGGAUUU----CAGgCUGUC- -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.