miRNA display CGI


Results 1 - 20 of 26 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
19579 5' -61.6 NC_004686.1 + 43091 0.66 0.400503
Target:  5'- aCGaCUCGGcCCAGCGGugacaaGCACCGCAu-- -3'
miRNA:   3'- -GCcGGGCU-GGUCGCC------CGUGGCGUuau -5'
19579 5' -61.6 NC_004686.1 + 54934 0.66 0.400503
Target:  5'- gCGGgCCGGC--GCGGGUccuuACCGCGGUc -3'
miRNA:   3'- -GCCgGGCUGguCGCCCG----UGGCGUUAu -5'
19579 5' -61.6 NC_004686.1 + 5564 0.66 0.400503
Target:  5'- aGGCUgugaccgcguCGACCGGUGuGUACCGCAc-- -3'
miRNA:   3'- gCCGG----------GCUGGUCGCcCGUGGCGUuau -5'
19579 5' -61.6 NC_004686.1 + 15651 0.66 0.391703
Target:  5'- aCGGCCUgcgguacuugauGACCGGUuccucuguGGGCcgagcACCGCAGUc -3'
miRNA:   3'- -GCCGGG------------CUGGUCG--------CCCG-----UGGCGUUAu -5'
19579 5' -61.6 NC_004686.1 + 54787 0.66 0.391703
Target:  5'- aCGGuCCCGAaCAGUGGaGCAuCCGCc--- -3'
miRNA:   3'- -GCC-GGGCUgGUCGCC-CGU-GGCGuuau -5'
19579 5' -61.6 NC_004686.1 + 12803 0.66 0.391703
Target:  5'- gCGGCCaUGAgUCAGcCGGGgAuCCGCGAUAu -3'
miRNA:   3'- -GCCGG-GCU-GGUC-GCCCgU-GGCGUUAU- -5'
19579 5' -61.6 NC_004686.1 + 11975 0.66 0.374484
Target:  5'- cCGGCCCaggaggcaGACCAGCGGacaugccguGCuGCUGCAu-- -3'
miRNA:   3'- -GCCGGG--------CUGGUCGCC---------CG-UGGCGUuau -5'
19579 5' -61.6 NC_004686.1 + 25664 0.66 0.374484
Target:  5'- gCGGCCCGAUaCAGCucaccuGGCaaggcaacuACCGCAAg- -3'
miRNA:   3'- -GCCGGGCUG-GUCGc-----CCG---------UGGCGUUau -5'
19579 5' -61.6 NC_004686.1 + 11914 0.66 0.374484
Target:  5'- gGGCCgGucgguGCCGGUGGGCaACCcguccaggGCAGUGa -3'
miRNA:   3'- gCCGGgC-----UGGUCGCCCG-UGG--------CGUUAU- -5'
19579 5' -61.6 NC_004686.1 + 8305 0.67 0.333732
Target:  5'- gGGCCUGGCCAcCGGGCAggcCCuCAGg- -3'
miRNA:   3'- gCCGGGCUGGUcGCCCGU---GGcGUUau -5'
19579 5' -61.6 NC_004686.1 + 14059 0.67 0.325981
Target:  5'- uCGGgCCGGCUugauaaguguguGGUGGaGUACCGCGAa- -3'
miRNA:   3'- -GCCgGGCUGG------------UCGCC-CGUGGCGUUau -5'
19579 5' -61.6 NC_004686.1 + 51382 0.68 0.295611
Target:  5'- uGGCCCcggucgugcaGAuacuguuCCAGCGGucccaucccGCGCCGCAGUGa -3'
miRNA:   3'- gCCGGG----------CU-------GGUCGCC---------CGUGGCGUUAU- -5'
19579 5' -61.6 NC_004686.1 + 22346 0.68 0.2823
Target:  5'- gGGUUCgGAUCGGCGGGCGgCaGCGGUGa -3'
miRNA:   3'- gCCGGG-CUGGUCGCCCGUgG-CGUUAU- -5'
19579 5' -61.6 NC_004686.1 + 6238 0.68 0.268807
Target:  5'- cCGGCUugCGACCAGCGcauCACCGCGc-- -3'
miRNA:   3'- -GCCGG--GCUGGUCGCcc-GUGGCGUuau -5'
19579 5' -61.6 NC_004686.1 + 24191 0.68 0.268807
Target:  5'- aGGCCCGcACCAuGUuacGCACCGCAAc- -3'
miRNA:   3'- gCCGGGC-UGGU-CGcc-CGUGGCGUUau -5'
19579 5' -61.6 NC_004686.1 + 27684 0.68 0.262258
Target:  5'- uGGUCCGACCGcgauccugacGCGGGUGCUGUc--- -3'
miRNA:   3'- gCCGGGCUGGU----------CGCCCGUGGCGuuau -5'
19579 5' -61.6 NC_004686.1 + 34081 0.68 0.26161
Target:  5'- uGGuCCCGAuguccacUCGGCuGGGCACUGCAu-- -3'
miRNA:   3'- gCC-GGGCU-------GGUCG-CCCGUGGCGUuau -5'
19579 5' -61.6 NC_004686.1 + 10002 0.69 0.255839
Target:  5'- aCGGggUGACCGGUGaGGCGCUGCAGa- -3'
miRNA:   3'- -GCCggGCUGGUCGC-CCGUGGCGUUau -5'
19579 5' -61.6 NC_004686.1 + 12225 0.69 0.225662
Target:  5'- gCGGCCUGACC-GCcGGCGCCGa---- -3'
miRNA:   3'- -GCCGGGCUGGuCGcCCGUGGCguuau -5'
19579 5' -61.6 NC_004686.1 + 33763 0.7 0.209043
Target:  5'- -cGCCCacGCCGGCGGgaGCACCGCAu-- -3'
miRNA:   3'- gcCGGGc-UGGUCGCC--CGUGGCGUuau -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.