miRNA display CGI


Results 1 - 20 of 25 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
16590 3' -50.6 NC_004117.1 + 33887 0.66 0.997089
Target:  5'- aCAGAAUGCACuauugaaACGCCaguUUGGCGAgaGCAc -3'
miRNA:   3'- -GUUUUGCGUG-------UGCGGc--AGCUGCU--UGU- -5'
16590 3' -50.6 NC_004117.1 + 156612 0.66 0.996623
Target:  5'- --uGGCGUACAUGCCGaCGgccACGAccGCAc -3'
miRNA:   3'- guuUUGCGUGUGCGGCaGC---UGCU--UGU- -5'
16590 3' -50.6 NC_004117.1 + 17982 0.66 0.996623
Target:  5'- uCGAGACGCaACAucagaguuCGaCuCGUCGACGAAUc -3'
miRNA:   3'- -GUUUUGCG-UGU--------GC-G-GCAGCUGCUUGu -5'
16590 3' -50.6 NC_004117.1 + 21345 0.66 0.996035
Target:  5'- cUAAAACGCAgucuggaucguUugGCgGUCGAaGAACGc -3'
miRNA:   3'- -GUUUUGCGU-----------GugCGgCAGCUgCUUGU- -5'
16590 3' -50.6 NC_004117.1 + 60550 0.66 0.994608
Target:  5'- ----cCGUaaACAuCGCCGUCGAUGAuGCAu -3'
miRNA:   3'- guuuuGCG--UGU-GCGGCAGCUGCU-UGU- -5'
16590 3' -50.6 NC_004117.1 + 63170 0.66 0.994362
Target:  5'- aAAGGCGCucaacgagcauuggACGCGCCGUCGuacaaaACGuuAACAu -3'
miRNA:   3'- gUUUUGCG--------------UGUGCGGCAGC------UGC--UUGU- -5'
16590 3' -50.6 NC_004117.1 + 19986 0.66 0.993752
Target:  5'- cCGGuGCGCuaguCGaacaGCCGUCGACGuuGCAc -3'
miRNA:   3'- -GUUuUGCGu---GUg---CGGCAGCUGCu-UGU- -5'
16590 3' -50.6 NC_004117.1 + 18548 0.66 0.993752
Target:  5'- --uAGCGUACACGCCuGUC-ACGGcuauuGCAa -3'
miRNA:   3'- guuUUGCGUGUGCGG-CAGcUGCU-----UGU- -5'
16590 3' -50.6 NC_004117.1 + 88506 0.67 0.990516
Target:  5'- -uAAACGCAgcaAUGCCaGUCaACGAACAg -3'
miRNA:   3'- guUUUGCGUg--UGCGG-CAGcUGCUUGU- -5'
16590 3' -50.6 NC_004117.1 + 110732 0.67 0.990516
Target:  5'- uCAGucCGCACgcaACGCUGUgGcCGAGCAa -3'
miRNA:   3'- -GUUuuGCGUG---UGCGGCAgCuGCUUGU- -5'
16590 3' -50.6 NC_004117.1 + 77782 0.67 0.990516
Target:  5'- --cGGCGCGguCGuuGUCGACGcuGGCGc -3'
miRNA:   3'- guuUUGCGUguGCggCAGCUGC--UUGU- -5'
16590 3' -50.6 NC_004117.1 + 67674 0.67 0.989185
Target:  5'- aCGAuuUGCGCACGCCcGUCGAUu---- -3'
miRNA:   3'- -GUUuuGCGUGUGCGG-CAGCUGcuugu -5'
16590 3' -50.6 NC_004117.1 + 41444 0.67 0.987712
Target:  5'- aCGAuGCGCACGCGCaaaUCaaGCGAGCAc -3'
miRNA:   3'- -GUUuUGCGUGUGCGgc-AGc-UGCUUGU- -5'
16590 3' -50.6 NC_004117.1 + 96231 0.68 0.977916
Target:  5'- uGAAuCGCGCACGgcuccgCGUCGACGcACAu -3'
miRNA:   3'- gUUUuGCGUGUGCg-----GCAGCUGCuUGU- -5'
16590 3' -50.6 NC_004117.1 + 132671 0.69 0.975409
Target:  5'- aAAAACGCA-AUGcCCGUCGuCGAAUAu -3'
miRNA:   3'- gUUUUGCGUgUGC-GGCAGCuGCUUGU- -5'
16590 3' -50.6 NC_004117.1 + 94845 0.69 0.972701
Target:  5'- -uAAACaGCcCACGCCGUCGcCGAGg- -3'
miRNA:   3'- guUUUG-CGuGUGCGGCAGCuGCUUgu -5'
16590 3' -50.6 NC_004117.1 + 102909 0.69 0.972701
Target:  5'- aAAGugGC-CGgGCCaauGUCGugGAACAg -3'
miRNA:   3'- gUUUugCGuGUgCGG---CAGCugCUUGU- -5'
16590 3' -50.6 NC_004117.1 + 112494 0.69 0.972701
Target:  5'- -----aGCACAUGCCuUCGGCGGAa- -3'
miRNA:   3'- guuuugCGUGUGCGGcAGCUGCUUgu -5'
16590 3' -50.6 NC_004117.1 + 68864 0.69 0.969783
Target:  5'- uUAAAGCGCAguCuagaucguuuGCuUGUCGACGAGCAa -3'
miRNA:   3'- -GUUUUGCGUguG----------CG-GCAGCUGCUUGU- -5'
16590 3' -50.6 NC_004117.1 + 51823 0.69 0.969783
Target:  5'- ----gUGCACgGCGCCuuuacGUCGGCGAGCu -3'
miRNA:   3'- guuuuGCGUG-UGCGG-----CAGCUGCUUGu -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.