miRNA display CGI


Results 1 - 20 of 39 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
16459 3' -53.9 NC_004084.1 + 42979 1.11 0.001201
Target:  5'- gCGAUCGAGCGCCUCGAUGAGGAACUCg -3'
miRNA:   3'- -GCUAGCUCGCGGAGCUACUCCUUGAG- -5'
16459 3' -53.9 NC_004084.1 + 30030 0.74 0.340839
Target:  5'- cCGAUCGAG-GUCUCGcgGGGGccGCUCg -3'
miRNA:   3'- -GCUAGCUCgCGGAGCuaCUCCu-UGAG- -5'
16459 3' -53.9 NC_004084.1 + 51093 0.74 0.357606
Target:  5'- gCGAUCGaAGU-CCUCGAgcagcgaGAGGAGCUCg -3'
miRNA:   3'- -GCUAGC-UCGcGGAGCUa------CUCCUUGAG- -5'
16459 3' -53.9 NC_004084.1 + 15395 0.74 0.374944
Target:  5'- gGGUCcgcuuGCGUCUCGuUGGGGAACUCc -3'
miRNA:   3'- gCUAGcu---CGCGGAGCuACUCCUUGAG- -5'
16459 3' -53.9 NC_004084.1 + 27643 0.72 0.459646
Target:  5'- gGAUCGcguaCGCCUCGAgGAGGucGCUCg -3'
miRNA:   3'- gCUAGCuc--GCGGAGCUaCUCCu-UGAG- -5'
16459 3' -53.9 NC_004084.1 + 8676 0.72 0.469679
Target:  5'- gCGAcccacUCGAGCaCCUCGAaGAGGAGacCUCg -3'
miRNA:   3'- -GCU-----AGCUCGcGGAGCUaCUCCUU--GAG- -5'
16459 3' -53.9 NC_004084.1 + 20630 0.71 0.504589
Target:  5'- uCGAUCGAagcccggaaagccugGCagguugaCCUCGAUGAGGAgugGCUCg -3'
miRNA:   3'- -GCUAGCU---------------CGc------GGAGCUACUCCU---UGAG- -5'
16459 3' -53.9 NC_004084.1 + 46727 0.7 0.553482
Target:  5'- uGGUCGGGCGagcacaUCGAucuUGAGGAGgUCg -3'
miRNA:   3'- gCUAGCUCGCgg----AGCU---ACUCCUUgAG- -5'
16459 3' -53.9 NC_004084.1 + 23205 0.7 0.56431
Target:  5'- gCGAUCGu-CGgCUCGAUcccgacgauucgGAGGAGCUCg -3'
miRNA:   3'- -GCUAGCucGCgGAGCUA------------CUCCUUGAG- -5'
16459 3' -53.9 NC_004084.1 + 41745 0.7 0.575193
Target:  5'- aCGAUCGGGacgaCGCCggCGAcGAGGAcCUCc -3'
miRNA:   3'- -GCUAGCUC----GCGGa-GCUaCUCCUuGAG- -5'
16459 3' -53.9 NC_004084.1 + 45137 0.69 0.61911
Target:  5'- -cAUCGAGC-CUcCGuUGAGGAACUCg -3'
miRNA:   3'- gcUAGCUCGcGGaGCuACUCCUUGAG- -5'
16459 3' -53.9 NC_004084.1 + 22152 0.69 0.630141
Target:  5'- uGAccgCGAGCGCCUCGGcgcacucGAGGAcgUCg -3'
miRNA:   3'- gCUa--GCUCGCGGAGCUa------CUCCUugAG- -5'
16459 3' -53.9 NC_004084.1 + 16350 0.69 0.652199
Target:  5'- gCGA-CGAGuUGCUUCGcGUGGuGGAGCUCg -3'
miRNA:   3'- -GCUaGCUC-GCGGAGC-UACU-CCUUGAG- -5'
16459 3' -53.9 NC_004084.1 + 11394 0.69 0.656604
Target:  5'- aGAUCcgcuuccaccacgcuGAGCGCCaCGAgGAGGAGCa- -3'
miRNA:   3'- gCUAG---------------CUCGCGGaGCUaCUCCUUGag -5'
16459 3' -53.9 NC_004084.1 + 39639 0.69 0.663205
Target:  5'- uCGAUCGuaCGCgaCGccGAGGAACUCg -3'
miRNA:   3'- -GCUAGCucGCGgaGCuaCUCCUUGAG- -5'
16459 3' -53.9 NC_004084.1 + 34661 0.68 0.674182
Target:  5'- uGAUaaCGuuuGCGCCUCGGUGAGaGGCgUCa -3'
miRNA:   3'- gCUA--GCu--CGCGGAGCUACUCcUUG-AG- -5'
16459 3' -53.9 NC_004084.1 + 27933 0.68 0.692745
Target:  5'- cCGaAUCGAucuggaguccggcaGCGCCUCGuaGAGGAACg- -3'
miRNA:   3'- -GC-UAGCU--------------CGCGGAGCuaCUCCUUGag -5'
16459 3' -53.9 NC_004084.1 + 52220 0.68 0.696005
Target:  5'- uCGGUCucGCgaGCCUCGAUcGAGacGAGCUCg -3'
miRNA:   3'- -GCUAGcuCG--CGGAGCUA-CUC--CUUGAG- -5'
16459 3' -53.9 NC_004084.1 + 20390 0.68 0.706829
Target:  5'- --uUCGAGgaUGCCUCuGGUGAGGcGCUUg -3'
miRNA:   3'- gcuAGCUC--GCGGAG-CUACUCCuUGAG- -5'
16459 3' -53.9 NC_004084.1 + 583 0.68 0.717579
Target:  5'- -cGUCGAuGUGCUcuUCGGUGAGGAcgccCUCg -3'
miRNA:   3'- gcUAGCU-CGCGG--AGCUACUCCUu---GAG- -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.