miRNA display CGI


Results 1 - 20 of 96 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
26028 3' -56.9 NC_005342.2 + 247 0.66 0.553786
Target:  5'- cACGCCGCCgAGCA-CGGucacggucGACGuCUGCg- -3'
miRNA:   3'- -UGCGGCGG-UUGUaGCU--------CUGC-GACGag -5'
26028 3' -56.9 NC_005342.2 + 337 0.67 0.521552
Target:  5'- -gGCUGCCAGCAguaaGAGaaGCGCgccgagccacaUGCUCa -3'
miRNA:   3'- ugCGGCGGUUGUag--CUC--UGCG-----------ACGAG- -5'
26028 3' -56.9 NC_005342.2 + 388 0.71 0.300706
Target:  5'- aGCGCCGUCcGCAggCGGcGCGCUGCa- -3'
miRNA:   3'- -UGCGGCGGuUGUa-GCUcUGCGACGag -5'
26028 3' -56.9 NC_005342.2 + 1297 0.67 0.509912
Target:  5'- cGCGCCGCCuuggcuGCG-CGcGAUGCUucgcggcGCUCg -3'
miRNA:   3'- -UGCGGCGGu-----UGUaGCuCUGCGA-------CGAG- -5'
26028 3' -56.9 NC_005342.2 + 1629 0.7 0.357046
Target:  5'- aACGCC-CCGAUAUCGGGGCGUcaaguaCUCg -3'
miRNA:   3'- -UGCGGcGGUUGUAGCUCUGCGac----GAG- -5'
26028 3' -56.9 NC_005342.2 + 1935 0.66 0.575603
Target:  5'- -gGCCGCU-GCAUCGAucUGCUGCa- -3'
miRNA:   3'- ugCGGCGGuUGUAGCUcuGCGACGag -5'
26028 3' -56.9 NC_005342.2 + 2036 0.66 0.564667
Target:  5'- gGCGCUGauCCGGCG-CGAGACGC-GCcCa -3'
miRNA:   3'- -UGCGGC--GGUUGUaGCUCUGCGaCGaG- -5'
26028 3' -56.9 NC_005342.2 + 2951 0.67 0.521552
Target:  5'- aACGCCuCgAGCuUCGGGACGUcGUUCg -3'
miRNA:   3'- -UGCGGcGgUUGuAGCUCUGCGaCGAG- -5'
26028 3' -56.9 NC_005342.2 + 3193 0.68 0.459506
Target:  5'- cGCGCCGCCcGCccCGAuGACGCcggGCa- -3'
miRNA:   3'- -UGCGGCGGuUGuaGCU-CUGCGa--CGag -5'
26028 3' -56.9 NC_005342.2 + 3210 0.67 0.479775
Target:  5'- cGCGCCGCCAGCgccacgcgcgGUCGAGcggccggacaGCGC-GC-Cg -3'
miRNA:   3'- -UGCGGCGGUUG----------UAGCUC----------UGCGaCGaG- -5'
26028 3' -56.9 NC_005342.2 + 3322 0.81 0.060394
Target:  5'- gGCGCgCGCgAcGCAUCGAGACGCaGCUCg -3'
miRNA:   3'- -UGCG-GCGgU-UGUAGCUCUGCGaCGAG- -5'
26028 3' -56.9 NC_005342.2 + 3365 0.66 0.590991
Target:  5'- gGCGUCGCCGuCGUCGcgggagcuucggugaAGAacaGCUGCg- -3'
miRNA:   3'- -UGCGGCGGUuGUAGC---------------UCUg--CGACGag -5'
26028 3' -56.9 NC_005342.2 + 3734 0.67 0.479775
Target:  5'- gUGCCGUaCAGCGUCGAcGugGC-GUUCu -3'
miRNA:   3'- uGCGGCG-GUUGUAGCU-CugCGaCGAG- -5'
26028 3' -56.9 NC_005342.2 + 4378 0.68 0.459506
Target:  5'- gUGCCGCgAGCAcCGGG-UGCUGCg- -3'
miRNA:   3'- uGCGGCGgUUGUaGCUCuGCGACGag -5'
26028 3' -56.9 NC_005342.2 + 5125 0.66 0.586586
Target:  5'- -aGCCGCCcguguUGUCGAGcaGCGCaGCUUg -3'
miRNA:   3'- ugCGGCGGuu---GUAGCUC--UGCGaCGAG- -5'
26028 3' -56.9 NC_005342.2 + 5544 0.68 0.438724
Target:  5'- aACGCCGCCcgcucgucggccGGCGUgGAGacgaucgGCGCUGUUg -3'
miRNA:   3'- -UGCGGCGG------------UUGUAgCUC-------UGCGACGAg -5'
26028 3' -56.9 NC_005342.2 + 5592 0.71 0.300706
Target:  5'- -gGCUGCuCGACGg-GAGACGCUGCg- -3'
miRNA:   3'- ugCGGCG-GUUGUagCUCUGCGACGag -5'
26028 3' -56.9 NC_005342.2 + 6662 0.67 0.521552
Target:  5'- cCGCCGCUucACGUgCGGGGCGCauugGCg- -3'
miRNA:   3'- uGCGGCGGu-UGUA-GCUCUGCGa---CGag -5'
26028 3' -56.9 NC_005342.2 + 6695 0.66 0.564667
Target:  5'- -gGUCGUgAGCAUCGcGACGCUGaCg- -3'
miRNA:   3'- ugCGGCGgUUGUAGCuCUGCGAC-Gag -5'
26028 3' -56.9 NC_005342.2 + 6804 0.66 0.532221
Target:  5'- gAC-UCGCCcGCGUCGAGcaGCGcCUGUUCg -3'
miRNA:   3'- -UGcGGCGGuUGUAGCUC--UGC-GACGAG- -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.