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
22023 3' -55.9 NC_004927.1 + 1416 1.11 0.001006
Target:  5'- uUCGGGCCUACAUACCGGGAAACCGCCc -3'
miRNA:   3'- -AGCCCGGAUGUAUGGCCCUUUGGCGG- -5'
22023 3' -55.9 NC_004927.1 + 32452 0.78 0.19597
Target:  5'- aCGGGCCUGucCGUACuCGGGGAAuccuUCGCCc -3'
miRNA:   3'- aGCCCGGAU--GUAUG-GCCCUUU----GGCGG- -5'
22023 3' -55.9 NC_004927.1 + 1151 0.74 0.329895
Target:  5'- aCGGGCCUAUGUgguuuaggGCCGGuucGGGCCGCUu -3'
miRNA:   3'- aGCCCGGAUGUA--------UGGCCc--UUUGGCGG- -5'
22023 3' -55.9 NC_004927.1 + 1367 0.74 0.353769
Target:  5'- uUCGGGCCguacuucaaACGUaacACCGGGAAACaCGUUc -3'
miRNA:   3'- -AGCCCGGa--------UGUA---UGGCCCUUUG-GCGG- -5'
22023 3' -55.9 NC_004927.1 + 25035 0.73 0.3962
Target:  5'- aCGGGCCUuCGUAgCGGGAGAUUagGUCu -3'
miRNA:   3'- aGCCCGGAuGUAUgGCCCUUUGG--CGG- -5'
22023 3' -55.9 NC_004927.1 + 50344 0.72 0.423184
Target:  5'- gCGGGUCUGCAU-CCGcuGGAGGCgGCg -3'
miRNA:   3'- aGCCCGGAUGUAuGGC--CCUUUGgCGg -5'
22023 3' -55.9 NC_004927.1 + 23034 0.71 0.510213
Target:  5'- aCGGggauGCCggagACGUACCGGcGAAuCCGUCa -3'
miRNA:   3'- aGCC----CGGa---UGUAUGGCC-CUUuGGCGG- -5'
22023 3' -55.9 NC_004927.1 + 681 0.7 0.576368
Target:  5'- -gGGGCCgaccgccccgguuaACAUcaaACCGGGGcgGGCCGCUu -3'
miRNA:   3'- agCCCGGa-------------UGUA---UGGCCCU--UUGGCGG- -5'
22023 3' -55.9 NC_004927.1 + 46687 0.7 0.551258
Target:  5'- cCGGGCCUGuuCAacuUCGaGGAgucgAACCGCCa -3'
miRNA:   3'- aGCCCGGAU--GUau-GGC-CCU----UUGGCGG- -5'
22023 3' -55.9 NC_004927.1 + 21863 0.7 0.539858
Target:  5'- gUCGgcGGCCUGCGggacACCcucGGGAAgccccucgucgucACCGCCg -3'
miRNA:   3'- -AGC--CCGGAUGUa---UGG---CCCUU-------------UGGCGG- -5'
22023 3' -55.9 NC_004927.1 + 394 0.69 0.582688
Target:  5'- aCGGGCCgUACuUACCGaau--CCGCCg -3'
miRNA:   3'- aGCCCGG-AUGuAUGGCccuuuGGCGG- -5'
22023 3' -55.9 NC_004927.1 + 725 0.69 0.625094
Target:  5'- cCGGGCCUuuuacGCCGGGGAGuauaucccCCgGCCc -3'
miRNA:   3'- aGCCCGGAugua-UGGCCCUUU--------GG-CGG- -5'
22023 3' -55.9 NC_004927.1 + 15315 0.68 0.650615
Target:  5'- -gGGGCCgACGUgguuGCCGGucuuaucgguguuGACCGCCa -3'
miRNA:   3'- agCCCGGaUGUA----UGGCCcu-----------UUGGCGG- -5'
22023 3' -55.9 NC_004927.1 + 32802 0.67 0.699162
Target:  5'- gUCGGGCCgcCGUaGCCGGuGuagguGuuGCCg -3'
miRNA:   3'- -AGCCCGGauGUA-UGGCC-Cuu---UggCGG- -5'
22023 3' -55.9 NC_004927.1 + 17615 0.67 0.709579
Target:  5'- aCGGaGCCaGCGgGCCGuaGAACCGCUc -3'
miRNA:   3'- aGCC-CGGaUGUaUGGCccUUUGGCGG- -5'
22023 3' -55.9 NC_004927.1 + 42418 0.66 0.789491
Target:  5'- aCGGGUCauuUGCu--CCGcGAAGCCGUCa -3'
miRNA:   3'- aGCCCGG---AUGuauGGCcCUUUGGCGG- -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.