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
23078 5' -52.6 NC_005178.1 + 33585 0.66 0.783504
Target:  5'- gCGGCCGG-----GCC-UCGUCGUCGGu -3'
miRNA:   3'- -GCCGGCCuuuagUGGuGGUAGUAGCU- -5'
23078 5' -52.6 NC_005178.1 + 33233 0.66 0.774148
Target:  5'- aGGCCGGGGAUggacagcggcgcaucCAuuuccagggcauacCCGCCGUCAcgcUCGGc -3'
miRNA:   3'- gCCGGCCUUUA---------------GU--------------GGUGGUAGU---AGCU- -5'
23078 5' -52.6 NC_005178.1 + 35162 0.66 0.7731
Target:  5'- cCGGCUGGAGgacGUCACUgucgGCCAggccgcagUCGUgGAc -3'
miRNA:   3'- -GCCGGCCUU---UAGUGG----UGGU--------AGUAgCU- -5'
23078 5' -52.6 NC_005178.1 + 4898 0.66 0.7731
Target:  5'- cCGGCCGGGAccaucccggaaAUgGCCgACCAgaUCGcCGAg -3'
miRNA:   3'- -GCCGGCCUU-----------UAgUGG-UGGU--AGUaGCU- -5'
23078 5' -52.6 NC_005178.1 + 17408 0.66 0.7731
Target:  5'- uGGCCGGGcgcuauGCCGCCG-CAUaCGAg -3'
miRNA:   3'- gCCGGCCUuuag--UGGUGGUaGUA-GCU- -5'
23078 5' -52.6 NC_005178.1 + 28552 0.66 0.762538
Target:  5'- gGGCCGuccgccgCGCCACCGggggCGUCGc -3'
miRNA:   3'- gCCGGCcuuua--GUGGUGGUa---GUAGCu -5'
23078 5' -52.6 NC_005178.1 + 8610 0.66 0.751831
Target:  5'- -cGCCGGAAGUCuCCgGCCAagGUCa- -3'
miRNA:   3'- gcCGGCCUUUAGuGG-UGGUagUAGcu -5'
23078 5' -52.6 NC_005178.1 + 20954 0.66 0.751831
Target:  5'- gCGGCaacguccaGGucuUCGCCggcGCCAUCGUCGu -3'
miRNA:   3'- -GCCGg-------CCuuuAGUGG---UGGUAGUAGCu -5'
23078 5' -52.6 NC_005178.1 + 14240 0.66 0.740992
Target:  5'- gGGCCgcgucuGGcAAGUCGgCACCAUCGUUa- -3'
miRNA:   3'- gCCGG------CC-UUUAGUgGUGGUAGUAGcu -5'
23078 5' -52.6 NC_005178.1 + 23458 0.66 0.740992
Target:  5'- gCGGCCGGugagUACgCACCAgaUCA-CGAa -3'
miRNA:   3'- -GCCGGCCuuuaGUG-GUGGU--AGUaGCU- -5'
23078 5' -52.6 NC_005178.1 + 34596 0.66 0.740992
Target:  5'- gCGGCCGcGAgGAUCGCgGgCCAUC-UUGAg -3'
miRNA:   3'- -GCCGGC-CU-UUAGUGgU-GGUAGuAGCU- -5'
23078 5' -52.6 NC_005178.1 + 16957 0.66 0.740992
Target:  5'- aGGCCGuccacUCGCCGCCGUUgaggCGAg -3'
miRNA:   3'- gCCGGCcuuu-AGUGGUGGUAGua--GCU- -5'
23078 5' -52.6 NC_005178.1 + 21362 0.67 0.730034
Target:  5'- aGGCCGG---UCACCGCUcgCAgcaGGg -3'
miRNA:   3'- gCCGGCCuuuAGUGGUGGuaGUag-CU- -5'
23078 5' -52.6 NC_005178.1 + 29844 0.67 0.730034
Target:  5'- uGGCUGGG--UCACCgACCGcgccucggCAUCGGa -3'
miRNA:   3'- gCCGGCCUuuAGUGG-UGGUa-------GUAGCU- -5'
23078 5' -52.6 NC_005178.1 + 12883 0.67 0.730034
Target:  5'- aCGGUCGGGGAaCAgaacuuCCagGCUGUCAUCGAc -3'
miRNA:   3'- -GCCGGCCUUUaGU------GG--UGGUAGUAGCU- -5'
23078 5' -52.6 NC_005178.1 + 34052 0.67 0.707812
Target:  5'- uGGCCGGGA--CGCCGCCcuugaugcaggcGUCAcguagggcaUCGAc -3'
miRNA:   3'- gCCGGCCUUuaGUGGUGG------------UAGU---------AGCU- -5'
23078 5' -52.6 NC_005178.1 + 21579 0.67 0.696574
Target:  5'- aCGGCUGGAGuaccUCGCCcgcgauGCUGUUAUCGc -3'
miRNA:   3'- -GCCGGCCUUu---AGUGG------UGGUAGUAGCu -5'
23078 5' -52.6 NC_005178.1 + 3643 0.67 0.696574
Target:  5'- aGGCCGccGAGcAUCGCCGCCAggcgCGGc -3'
miRNA:   3'- gCCGGC--CUU-UAGUGGUGGUaguaGCU- -5'
23078 5' -52.6 NC_005178.1 + 8844 0.67 0.685268
Target:  5'- cCGGCCcacauGUCgGCCGCCAUCugGUCGGg -3'
miRNA:   3'- -GCCGGccuu-UAG-UGGUGGUAG--UAGCU- -5'
23078 5' -52.6 NC_005178.1 + 17493 0.67 0.685268
Target:  5'- aGGCCGGAGccuUCG-CGCCAU--UCGAa -3'
miRNA:   3'- gCCGGCCUUu--AGUgGUGGUAguAGCU- -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.