miRNA display CGI


Results 1 - 19 of 19 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
22189 3' -45.8 NC_004927.1 + 21332 0.8 0.619189
Target:  5'- cGGAGCGCCGUUgUCGUCGGUGgcGAaCCa -3'
miRNA:   3'- -UCUUGCGGUAG-AGCAGUUAUuuCU-GG- -5'
22189 3' -45.8 NC_004927.1 + 45625 0.74 0.893555
Target:  5'- cGGAUGCCuaccagCUUGcccUCGAUGAAGGCCg -3'
miRNA:   3'- uCUUGCGGua----GAGC---AGUUAUUUCUGG- -5'
22189 3' -45.8 NC_004927.1 + 68756 0.7 0.982586
Target:  5'- uGAACGCCGcUgUCGaUGAUGAGGACg -3'
miRNA:   3'- uCUUGCGGU-AgAGCaGUUAUUUCUGg -5'
22189 3' -45.8 NC_004927.1 + 39502 0.7 0.982805
Target:  5'- gGGAGCGCCGUCgaacaaaucugguaGUCAAaGAGcuucGACCg -3'
miRNA:   3'- -UCUUGCGGUAGag------------CAGUUaUUU----CUGG- -5'
22189 3' -45.8 NC_004927.1 + 24171 0.7 0.984682
Target:  5'- gGGAACGUCGaa--GUCGAUGAAGAUa -3'
miRNA:   3'- -UCUUGCGGUagagCAGUUAUUUCUGg -5'
22189 3' -45.8 NC_004927.1 + 72385 0.69 0.99243
Target:  5'- cGGACuCCG-CUCGU-GGUGAAGACCc -3'
miRNA:   3'- uCUUGcGGUaGAGCAgUUAUUUCUGG- -5'
22189 3' -45.8 NC_004927.1 + 64554 0.69 0.99243
Target:  5'- gAGAACaGCaacaccaucaAUCUCGUUGAUGGAGAgCu -3'
miRNA:   3'- -UCUUG-CGg---------UAGAGCAGUUAUUUCUgG- -5'
22189 3' -45.8 NC_004927.1 + 14223 0.68 0.993515
Target:  5'- uGAACGUCGUgUCG-CAAUcgGGGCa -3'
miRNA:   3'- uCUUGCGGUAgAGCaGUUAuuUCUGg -5'
22189 3' -45.8 NC_004927.1 + 10932 0.68 0.993515
Target:  5'- cAGGACucgcccuCCGUCUCGUCGGggAGGGAgCa -3'
miRNA:   3'- -UCUUGc------GGUAGAGCAGUUa-UUUCUgG- -5'
22189 3' -45.8 NC_004927.1 + 22186 0.68 0.993515
Target:  5'- cGGGGuCGCCGuUCUCGUC-GUGGGGAa- -3'
miRNA:   3'- -UCUU-GCGGU-AGAGCAGuUAUUUCUgg -5'
22189 3' -45.8 NC_004927.1 + 23245 0.68 0.994471
Target:  5'- gAGAGuCGCCGUCUCcgcUCGGUcggGGAGAgCg -3'
miRNA:   3'- -UCUU-GCGGUAGAGc--AGUUA---UUUCUgG- -5'
22189 3' -45.8 NC_004927.1 + 26306 0.68 0.996042
Target:  5'- uGAACGUCGUagagccaCGUCAGcgGGAGACUg -3'
miRNA:   3'- uCUUGCGGUAga-----GCAGUUa-UUUCUGG- -5'
22189 3' -45.8 NC_004927.1 + 52741 0.67 0.997699
Target:  5'- cGAugGCGaCCAUcCUCGggugCGAgguUGAAGACCu -3'
miRNA:   3'- uCU--UGC-GGUA-GAGCa---GUU---AUUUCUGG- -5'
22189 3' -45.8 NC_004927.1 + 36795 0.67 0.998102
Target:  5'- cGGAACGUccuucucaauCAUCUCGaug--AGAGGCCa -3'
miRNA:   3'- -UCUUGCG----------GUAGAGCaguuaUUUCUGG- -5'
22189 3' -45.8 NC_004927.1 + 3327 0.67 0.998732
Target:  5'- --uGCGCUucucgauuucCUCGUCAGUAAGG-CCg -3'
miRNA:   3'- ucuUGCGGua--------GAGCAGUUAUUUCuGG- -5'
22189 3' -45.8 NC_004927.1 + 9424 0.67 0.998732
Target:  5'- uAGAA-GCCGUUaUCG-CAAUGGuAGACCa -3'
miRNA:   3'- -UCUUgCGGUAG-AGCaGUUAUU-UCUGG- -5'
22189 3' -45.8 NC_004927.1 + 61829 0.66 0.99934
Target:  5'- cGAACGCUGUCUaucagGUCAcucgcgcuAcGAAGGCCc -3'
miRNA:   3'- uCUUGCGGUAGAg----CAGU--------UaUUUCUGG- -5'
22189 3' -45.8 NC_004927.1 + 73445 0.66 0.999477
Target:  5'- gAGGACgGUCAgCUCGUCcgagaGGAGACUg -3'
miRNA:   3'- -UCUUG-CGGUaGAGCAGuua--UUUCUGG- -5'
22189 3' -45.8 NC_004927.1 + 69599 0.66 0.999477
Target:  5'- cGAGCGU--UCUCGcaacaaccgcgcUCAGgugGAAGACCu -3'
miRNA:   3'- uCUUGCGguAGAGC------------AGUUa--UUUCUGG- -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.