miRNA display CGI


Results 1 - 14 of 14 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
18598 3' -53.8 NC_004682.1 + 32597 0.66 0.732546
Target:  5'- -uCUCGGCGUc-AGCcGCCUCAUgCCAg -3'
miRNA:   3'- auGAGCCGCGacUUGaUGGAGUA-GGU- -5'
18598 3' -53.8 NC_004682.1 + 24518 0.66 0.732546
Target:  5'- aGgUCGGCGC-GGACUACCggggcuggggcuUCAUCa- -3'
miRNA:   3'- aUgAGCCGCGaCUUGAUGG------------AGUAGgu -5'
18598 3' -53.8 NC_004682.1 + 32238 0.66 0.710609
Target:  5'- aGCUCGGCGUUcucccGAACcacguCCUCGaCCAg -3'
miRNA:   3'- aUGAGCCGCGA-----CUUGau---GGAGUaGGU- -5'
18598 3' -53.8 NC_004682.1 + 44647 0.67 0.688344
Target:  5'- gUACUC-GCGCUGAACgucaGCgUCGUCg- -3'
miRNA:   3'- -AUGAGcCGCGACUUGa---UGgAGUAGgu -5'
18598 3' -53.8 NC_004682.1 + 1151 0.67 0.654547
Target:  5'- aACUCGaUGCUGAGCagccuCCUCGUCUc -3'
miRNA:   3'- aUGAGCcGCGACUUGau---GGAGUAGGu -5'
18598 3' -53.8 NC_004682.1 + 1298 0.68 0.609226
Target:  5'- aGCUaCGGCGUcGAgcGCUACUUgGUCCGc -3'
miRNA:   3'- aUGA-GCCGCGaCU--UGAUGGAgUAGGU- -5'
18598 3' -53.8 NC_004682.1 + 47900 0.68 0.608095
Target:  5'- gUGCUCGaGCGCUGcgaugacuucagcAACUgcgagcugcGCCUUGUCCGg -3'
miRNA:   3'- -AUGAGC-CGCGAC-------------UUGA---------UGGAGUAGGU- -5'
18598 3' -53.8 NC_004682.1 + 35217 0.68 0.58665
Target:  5'- cGCUCGGCuucccccgGCUGggUcGCgUUCAUCCAc -3'
miRNA:   3'- aUGAGCCG--------CGACuuGaUG-GAGUAGGU- -5'
18598 3' -53.8 NC_004682.1 + 2968 0.69 0.553109
Target:  5'- gGCggCGGCGCUGGGCaguggaacuCCUCAcccUCCGa -3'
miRNA:   3'- aUGa-GCCGCGACUUGau-------GGAGU---AGGU- -5'
18598 3' -53.8 NC_004682.1 + 14867 0.69 0.542051
Target:  5'- gUACUaCGGCGC-GAAC-GCCUCGaCCAc -3'
miRNA:   3'- -AUGA-GCCGCGaCUUGaUGGAGUaGGU- -5'
18598 3' -53.8 NC_004682.1 + 37246 0.7 0.509352
Target:  5'- gUGCUCGGCGUcccagGAGCgcgggaACCgCAUCCGg -3'
miRNA:   3'- -AUGAGCCGCGa----CUUGa-----UGGaGUAGGU- -5'
18598 3' -53.8 NC_004682.1 + 12812 0.71 0.436654
Target:  5'- --gUCGGCGCUGAGgcACCUCGgcaCCGa -3'
miRNA:   3'- augAGCCGCGACUUgaUGGAGUa--GGU- -5'
18598 3' -53.8 NC_004682.1 + 38024 0.73 0.335596
Target:  5'- -cCUCGGUGCcGAGgUGCCUCAgcgCCGa -3'
miRNA:   3'- auGAGCCGCGaCUUgAUGGAGUa--GGU- -5'
18598 3' -53.8 NC_004682.1 + 20550 1.07 0.001452
Target:  5'- cUACUCGGCGCUGAACUACCUCAUCCAg -3'
miRNA:   3'- -AUGAGCCGCGACUUGAUGGAGUAGGU- -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.