miRNA display CGI


Results 1 - 20 of 47 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
20439 3' -56.9 NC_004688.1 + 72064 0.66 0.843785
Target:  5'- uGCUGGCGGUCAUCcaGC-ACGAaaagaacGUCGAa -3'
miRNA:   3'- -CGGCCGCUAGUAG--CGuUGCUc------CGGCU- -5'
20439 3' -56.9 NC_004688.1 + 9687 0.66 0.843785
Target:  5'- uUCGGCGAgagCcUCGCGA--AGGCUGAu -3'
miRNA:   3'- cGGCCGCUa--GuAGCGUUgcUCCGGCU- -5'
20439 3' -56.9 NC_004688.1 + 97277 0.66 0.843785
Target:  5'- uUUGGCG-UCGUCuGCGGCGAGaaaGCCGu -3'
miRNA:   3'- cGGCCGCuAGUAG-CGUUGCUC---CGGCu -5'
20439 3' -56.9 NC_004688.1 + 57235 0.66 0.84134
Target:  5'- -gCGGcCGAauucaucgccaccgUCGUCGCAucacccggGCGGGGCCa- -3'
miRNA:   3'- cgGCC-GCU--------------AGUAGCGU--------UGCUCCGGcu -5'
20439 3' -56.9 NC_004688.1 + 50948 0.66 0.835567
Target:  5'- cGCCGGCGAUgAaggaCGCGGCGAaa-CGAu -3'
miRNA:   3'- -CGGCCGCUAgUa---GCGUUGCUccgGCU- -5'
20439 3' -56.9 NC_004688.1 + 83126 0.66 0.835567
Target:  5'- uGCCGGCGcgCAcCGCcuuGCGAuGGacuuucCCGAa -3'
miRNA:   3'- -CGGCCGCuaGUaGCGu--UGCU-CC------GGCU- -5'
20439 3' -56.9 NC_004688.1 + 52738 0.66 0.835567
Target:  5'- cGCCGcGcCGAUCcgCGaauGCugGGGGCCGGa -3'
miRNA:   3'- -CGGC-C-GCUAGuaGCgu-UG--CUCCGGCU- -5'
20439 3' -56.9 NC_004688.1 + 16696 0.66 0.818579
Target:  5'- cGCCGcccagcgcacuGCGGUaggguuggggCAUCGCGGCG-GGCCa- -3'
miRNA:   3'- -CGGC-----------CGCUA----------GUAGCGUUGCuCCGGcu -5'
20439 3' -56.9 NC_004688.1 + 24813 0.66 0.818579
Target:  5'- aGCCGGCuaggCcgCGCGAgaugcCGAGGUCGu -3'
miRNA:   3'- -CGGCCGcua-GuaGCGUU-----GCUCCGGCu -5'
20439 3' -56.9 NC_004688.1 + 20619 0.66 0.81597
Target:  5'- cUUGGCGAUCGUguagUGCGccuggccgacgucaGCGAGGCUGu -3'
miRNA:   3'- cGGCCGCUAGUA----GCGU--------------UGCUCCGGCu -5'
20439 3' -56.9 NC_004688.1 + 25827 0.66 0.809823
Target:  5'- -gCGGCGuUgGUgCGCAGCGAcgGGUCGAu -3'
miRNA:   3'- cgGCCGCuAgUA-GCGUUGCU--CCGGCU- -5'
20439 3' -56.9 NC_004688.1 + 101844 0.66 0.809823
Target:  5'- uCCGGCGAugagauuugguUCAgcgaagGCAcCGAGGUCGAc -3'
miRNA:   3'- cGGCCGCU-----------AGUag----CGUuGCUCCGGCU- -5'
20439 3' -56.9 NC_004688.1 + 89260 0.66 0.809823
Target:  5'- uUCGGCGucCAUCuCGGCGGGGuuGAc -3'
miRNA:   3'- cGGCCGCuaGUAGcGUUGCUCCggCU- -5'
20439 3' -56.9 NC_004688.1 + 97456 0.66 0.800904
Target:  5'- aGCCGGCgcuGAUCAUC-CAGCGucaucGGCUu- -3'
miRNA:   3'- -CGGCCG---CUAGUAGcGUUGCu----CCGGcu -5'
20439 3' -56.9 NC_004688.1 + 28167 0.66 0.800904
Target:  5'- aCUGGCGGUCGUUGuUGGCGGuGCCGc -3'
miRNA:   3'- cGGCCGCUAGUAGC-GUUGCUcCGGCu -5'
20439 3' -56.9 NC_004688.1 + 28491 0.67 0.79183
Target:  5'- cCUGGC---CAUCgGCGAgGGGGCCGAa -3'
miRNA:   3'- cGGCCGcuaGUAG-CGUUgCUCCGGCU- -5'
20439 3' -56.9 NC_004688.1 + 83472 0.67 0.79183
Target:  5'- uUCGGCccugcuUCAgCGcCAACGAGGCCGc -3'
miRNA:   3'- cGGCCGcu----AGUaGC-GUUGCUCCGGCu -5'
20439 3' -56.9 NC_004688.1 + 36203 0.67 0.78261
Target:  5'- cGCCGGaccacgCAUCGCGauauACGgcgcgaacaccAGGCCGAa -3'
miRNA:   3'- -CGGCCgcua--GUAGCGU----UGC-----------UCCGGCU- -5'
20439 3' -56.9 NC_004688.1 + 10661 0.67 0.78261
Target:  5'- cGCUgggGGCGGUCAgCGCGGCGuuguccgcGGCCu- -3'
miRNA:   3'- -CGG---CCGCUAGUaGCGUUGCu-------CCGGcu -5'
20439 3' -56.9 NC_004688.1 + 35618 0.67 0.78261
Target:  5'- gGCCGGUGGccuUCAUC-UGGCGAGcaacGCCGGa -3'
miRNA:   3'- -CGGCCGCU---AGUAGcGUUGCUC----CGGCU- -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.