miRNA display CGI


Results 1 - 12 of 12 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
20552 3' -53.3 NC_004688.1 + 66174 0.66 0.940432
Target:  5'- aCCGGCaccUGCUgaggcuggcccCUGUCGAUauccagGGGCUugGg -3'
miRNA:   3'- -GGCCG---ACGA-----------GACGGUUAa-----CUCGAugC- -5'
20552 3' -53.3 NC_004688.1 + 95312 0.66 0.91884
Target:  5'- aCGGC-GCUCUauucuAUUGAGCUACa -3'
miRNA:   3'- gGCCGaCGAGAcggu-UAACUCGAUGc -5'
20552 3' -53.3 NC_004688.1 + 37173 0.66 0.91884
Target:  5'- aCCGGCgauaGCguccgacgCUGCUuugUGAGUUGCa -3'
miRNA:   3'- -GGCCGa---CGa-------GACGGuuaACUCGAUGc -5'
20552 3' -53.3 NC_004688.1 + 53229 0.67 0.886046
Target:  5'- aCGGCgcgGUaUUggcGCCAggUGGGCUACGg -3'
miRNA:   3'- gGCCGa--CG-AGa--CGGUuaACUCGAUGC- -5'
20552 3' -53.3 NC_004688.1 + 61833 0.69 0.821246
Target:  5'- gUGGCUGCggcgguagUUGCCGcggggcucGUcgGAGCUGCGg -3'
miRNA:   3'- gGCCGACGa-------GACGGU--------UAa-CUCGAUGC- -5'
20552 3' -53.3 NC_004688.1 + 47403 0.7 0.774419
Target:  5'- uCgGGC-GUUCUGCCAGaUGAGCgcagACa -3'
miRNA:   3'- -GgCCGaCGAGACGGUUaACUCGa---UGc -5'
20552 3' -53.3 NC_004688.1 + 37986 0.7 0.744581
Target:  5'- uCCGGCUGCaaaGCCuccaGGGCUGCa -3'
miRNA:   3'- -GGCCGACGagaCGGuuaaCUCGAUGc -5'
20552 3' -53.3 NC_004688.1 + 26589 0.71 0.692847
Target:  5'- uCCGGCcGUUCcGCCAAgggcGGGCUugGc -3'
miRNA:   3'- -GGCCGaCGAGaCGGUUaa--CUCGAugC- -5'
20552 3' -53.3 NC_004688.1 + 45784 0.73 0.597052
Target:  5'- aCCGGCUGCUgggcguguaUUGgCGAggcugUGGGCUGCa -3'
miRNA:   3'- -GGCCGACGA---------GACgGUUa----ACUCGAUGc -5'
20552 3' -53.3 NC_004688.1 + 51342 0.78 0.345268
Target:  5'- aCCGGCUGCUC-GCCGaauugguagccgagGUUGAGCgucUGCGc -3'
miRNA:   3'- -GGCCGACGAGaCGGU--------------UAACUCG---AUGC- -5'
20552 3' -53.3 NC_004688.1 + 103662 0.79 0.301574
Target:  5'- gCCGGCgGCUCUGCCGAgcucguggUGAGCg--- -3'
miRNA:   3'- -GGCCGaCGAGACGGUUa-------ACUCGaugc -5'
20552 3' -53.3 NC_004688.1 + 96573 1.12 0.002227
Target:  5'- gCCGGCUGCUCUGCCAAUUGAGCUACGg -3'
miRNA:   3'- -GGCCGACGAGACGGUUAACUCGAUGC- -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.