miRNA display CGI


Results 1 - 20 of 60 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
16446 3' -55.1 NC_004084.1 + 633 0.73 0.36324
Target:  5'- gCGAUCuCGUCGUGGAgcucCUCGAcggCGUCg -3'
miRNA:   3'- aGCUAGcGCAGCGCCU----GAGCUa--GCAG- -5'
16446 3' -55.1 NC_004084.1 + 2429 0.68 0.685182
Target:  5'- gCGAUCGUGg-GCGGugaaUCGAcCGUCg -3'
miRNA:   3'- aGCUAGCGCagCGCCug--AGCUaGCAG- -5'
16446 3' -55.1 NC_004084.1 + 2629 0.66 0.748065
Target:  5'- -gGAUC-CGgacaCGGACUCGAUCGUg -3'
miRNA:   3'- agCUAGcGCagc-GCCUGAGCUAGCAg -5'
16446 3' -55.1 NC_004084.1 + 6166 0.66 0.758211
Target:  5'- gCGAUCGgGcUCcagGUGGAcCUCGAgcUCGUCu -3'
miRNA:   3'- aGCUAGCgC-AG---CGCCU-GAGCU--AGCAG- -5'
16446 3' -55.1 NC_004084.1 + 8280 0.71 0.490878
Target:  5'- aCGGUCGUGU-GCGGAaCUCGGcaucccguugggcuUCGUCc -3'
miRNA:   3'- aGCUAGCGCAgCGCCU-GAGCU--------------AGCAG- -5'
16446 3' -55.1 NC_004084.1 + 9237 0.66 0.787861
Target:  5'- cUCGAUCaggGCGUCcaGCGu-CUCGGggUCGUCg -3'
miRNA:   3'- -AGCUAG---CGCAG--CGCcuGAGCU--AGCAG- -5'
16446 3' -55.1 NC_004084.1 + 10032 0.67 0.737805
Target:  5'- aCGAUgcCGCGUCGaCGGugaccuaucacGgUCGAUCGUa -3'
miRNA:   3'- aGCUA--GCGCAGC-GCC-----------UgAGCUAGCAg -5'
16446 3' -55.1 NC_004084.1 + 10505 0.69 0.597868
Target:  5'- -gGAUCGCGcggcaccUCGCGGAg-CGAcCGUCg -3'
miRNA:   3'- agCUAGCGC-------AGCGCCUgaGCUaGCAG- -5'
16446 3' -55.1 NC_004084.1 + 11107 0.67 0.695847
Target:  5'- uUCGAUCGaCGUCucguCGGACgagUCGGUCcUCa -3'
miRNA:   3'- -AGCUAGC-GCAGc---GCCUG---AGCUAGcAG- -5'
16446 3' -55.1 NC_004084.1 + 11405 0.73 0.366629
Target:  5'- aUCGAUCGCGacguccucgaggaacUCGCGGucguCUCGAaguUCGUg -3'
miRNA:   3'- -AGCUAGCGC---------------AGCGCCu---GAGCU---AGCAg -5'
16446 3' -55.1 NC_004084.1 + 11928 0.7 0.556183
Target:  5'- cCGG-CGaCGUCGCgaccagcgaGGACUCGAUCGa- -3'
miRNA:   3'- aGCUaGC-GCAGCG---------CCUGAGCUAGCag -5'
16446 3' -55.1 NC_004084.1 + 12440 0.78 0.17984
Target:  5'- aUGAUCGCGUCGaCGuGC-CGAUCGUCg -3'
miRNA:   3'- aGCUAGCGCAGC-GCcUGaGCUAGCAG- -5'
16446 3' -55.1 NC_004084.1 + 13767 0.7 0.54562
Target:  5'- -aGGUCGCGcuggGCGGGCUCGGagaucgCGUCc -3'
miRNA:   3'- agCUAGCGCag--CGCCUGAGCUa-----GCAG- -5'
16446 3' -55.1 NC_004084.1 + 13914 0.67 0.737805
Target:  5'- gCGAcCGCuUCGCGGAaCUCc-UCGUCa -3'
miRNA:   3'- aGCUaGCGcAGCGCCU-GAGcuAGCAG- -5'
16446 3' -55.1 NC_004084.1 + 14707 0.67 0.695847
Target:  5'- aUCGAUgGCGUCcUGGAgCUCguugaGAUCGUUg -3'
miRNA:   3'- -AGCUAgCGCAGcGCCU-GAG-----CUAGCAG- -5'
16446 3' -55.1 NC_004084.1 + 15424 0.76 0.243288
Target:  5'- cUCGAUCGCGUCGaguuccucaucgaGGcGCUCGAUCG-Cg -3'
miRNA:   3'- -AGCUAGCGCAGCg------------CC-UGAGCUAGCaG- -5'
16446 3' -55.1 NC_004084.1 + 16095 0.67 0.706453
Target:  5'- gUCGAUCuCGUCccgaCGGuCgucgCGAUCGUCg -3'
miRNA:   3'- -AGCUAGcGCAGc---GCCuGa---GCUAGCAG- -5'
16446 3' -55.1 NC_004084.1 + 16516 0.77 0.227612
Target:  5'- gCGAUCGCGUCGCcg---CGGUCGUCg -3'
miRNA:   3'- aGCUAGCGCAGCGccugaGCUAGCAG- -5'
16446 3' -55.1 NC_004084.1 + 16630 0.66 0.768233
Target:  5'- gUCGAUCGUGaCGCc--CUCG-UCGUCg -3'
miRNA:   3'- -AGCUAGCGCaGCGccuGAGCuAGCAG- -5'
16446 3' -55.1 NC_004084.1 + 16739 0.69 0.620521
Target:  5'- cCGGUCuGCaUCGCGGcCUCGAUgaCGUUg -3'
miRNA:   3'- aGCUAG-CGcAGCGCCuGAGCUA--GCAG- -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.